Showing
26 changed files
with
2114 additions
and
2114 deletions
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 3 | -"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 4 | -"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 5 | "GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 2 | "GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" |
| 6 | "GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 3 | "GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" |
| 7 | "GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | 4 | "GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" |
| ... | @@ -14,6 +11,9 @@ | ... | @@ -14,6 +11,9 @@ |
| 14 | "GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 11 | "GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" |
| 15 | "GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 12 | "GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" |
| 16 | "GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 13 | "GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" |
| 14 | +"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 15 | +"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 16 | +"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 17 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 17 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 18 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 18 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 19 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 19 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 3 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 4 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 5 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 6 | -"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 7 | -"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 8 | -"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 9 | "GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 2 | "GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" |
| 10 | "GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 3 | "GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" |
| 11 | "GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | 4 | "GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" |
| ... | @@ -18,6 +11,9 @@ | ... | @@ -18,6 +11,9 @@ |
| 18 | "GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 11 | "GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" |
| 19 | "GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 12 | "GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" |
| 20 | "GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 13 | "GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" |
| 14 | +"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 15 | +"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 16 | +"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 21 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 17 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 22 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 18 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 23 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 19 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -33,3 +29,7 @@ | ... | @@ -33,3 +29,7 @@ |
| 33 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 29 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 34 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 30 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 35 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 31 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 32 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 33 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 34 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 35 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 3 | -"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 4 | -"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 5 | -"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 6 | -"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 7 | -"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 8 | -"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 9 | -"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 10 | -"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 11 | -"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 12 | -"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 13 | -"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 14 | -"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 15 | -"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 16 | -"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 17 | -"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 18 | -"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 19 | -"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 20 | -"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 21 | -"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 22 | -"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 23 | -"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 24 | -"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 25 | -"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 26 | -"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 27 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 28 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 29 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 30 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 31 | -"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 32 | -"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 33 | -"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 34 | "GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 2 | "GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" |
| 35 | "GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 3 | "GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" |
| 36 | "GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | 4 | "GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" |
| ... | @@ -43,6 +11,9 @@ | ... | @@ -43,6 +11,9 @@ |
| 43 | "GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 11 | "GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" |
| 44 | "GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 12 | "GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" |
| 45 | "GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 13 | "GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" |
| 14 | +"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 15 | +"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 16 | +"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 46 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 17 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 47 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 18 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 48 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 19 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -58,3 +29,32 @@ | ... | @@ -58,3 +29,32 @@ |
| 58 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 29 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 59 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 30 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 60 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 31 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 32 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 33 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 34 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 35 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 36 | +"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 37 | +"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 38 | +"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 39 | +"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 40 | +"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 41 | +"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 42 | +"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 43 | +"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 44 | +"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 45 | +"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 46 | +"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 47 | +"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 48 | +"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 49 | +"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 50 | +"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 51 | +"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 52 | +"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 53 | +"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 54 | +"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 55 | +"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 56 | +"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 57 | +"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 58 | +"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 59 | +"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 60 | +"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 3 | -"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 4 | -"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 5 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 2 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 6 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 3 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 7 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 4 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 8 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 5 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 9 | -"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 10 | -"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 11 | -"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 12 | -"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 13 | -"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 14 | -"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 15 | -"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 16 | -"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 17 | -"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 18 | -"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 19 | -"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 20 | -"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 21 | -"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 22 | -"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 23 | -"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 24 | -"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 25 | -"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 26 | -"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 27 | -"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 28 | -"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 29 | -"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 30 | -"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 31 | -"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 32 | -"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 33 | -"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 34 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 35 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 36 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 37 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 38 | "GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 6 | "GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" |
| 39 | "GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 7 | "GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" |
| 40 | "GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | 8 | "GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" |
| ... | @@ -47,6 +15,9 @@ | ... | @@ -47,6 +15,9 @@ |
| 47 | "GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 15 | "GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" |
| 48 | "GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 16 | "GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" |
| 49 | "GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 17 | "GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" |
| 18 | +"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 19 | +"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 20 | +"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 50 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 21 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 51 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 22 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 52 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 23 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -62,3 +33,32 @@ | ... | @@ -62,3 +33,32 @@ |
| 62 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 33 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 63 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 34 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 64 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 35 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 36 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 37 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 38 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 39 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 40 | +"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 41 | +"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 42 | +"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 43 | +"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 44 | +"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 45 | +"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 46 | +"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 47 | +"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 48 | +"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 49 | +"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 50 | +"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 51 | +"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 52 | +"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 53 | +"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 54 | +"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 55 | +"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 56 | +"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 57 | +"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 58 | +"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 59 | +"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 60 | +"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 61 | +"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 62 | +"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 63 | +"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 64 | +"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 3 | -"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 4 | -"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 5 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 2 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 6 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 3 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 7 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 4 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 8 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 5 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 6 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 7 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 8 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 9 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 10 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 11 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 12 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 13 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 14 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 15 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 16 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 17 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 18 | +"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 19 | +"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 20 | +"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 9 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 21 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 10 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 22 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 11 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 23 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -54,6 +66,25 @@ | ... | @@ -54,6 +66,25 @@ |
| 54 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" | 66 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" |
| 55 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" | 67 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" |
| 56 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" | 68 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" |
| 69 | +"GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 70 | +"GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 71 | +"GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 72 | +"GSE19053","GSM471485","SeqA old rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 73 | +"GSE19053","GSM471486","SeqA new rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 74 | +"GSE19053","GSM471487","SeqA new rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 75 | +"GSE19053","GSM471488","SeqA old deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 76 | +"GSE19053","GSM471489","SeqA new deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 77 | +"GSE19053","GSM471490","Crosslink","","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 78 | +"GSE19053","GSM471491","σ32 43°C rep1, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 79 | +"GSE19053","GSM471492","σ32 43°C rep2, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 80 | +"GSE19053","GSM471493","σ32 30°C rep1, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 81 | +"GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 82 | +"GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 83 | +"GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 84 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 85 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 86 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 87 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 57 | "GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 88 | "GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 58 | "GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 89 | "GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 59 | "GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 90 | "GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| ... | @@ -79,34 +110,3 @@ | ... | @@ -79,34 +110,3 @@ |
| 79 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 110 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 80 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 111 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 81 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 112 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 82 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 83 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 84 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 85 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 86 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 87 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 88 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 89 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 90 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 91 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 92 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 93 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 94 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 95 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 96 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 97 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 98 | -"GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 99 | -"GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 100 | -"GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 101 | -"GSE19053","GSM471485","SeqA old rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 102 | -"GSE19053","GSM471486","SeqA new rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 103 | -"GSE19053","GSM471487","SeqA new rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 104 | -"GSE19053","GSM471488","SeqA old deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 105 | -"GSE19053","GSM471489","SeqA new deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 106 | -"GSE19053","GSM471490","Crosslink","","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 107 | -"GSE19053","GSM471491","σ32 43°C rep1, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 108 | -"GSE19053","GSM471492","σ32 43°C rep2, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 109 | -"GSE19053","GSM471493","σ32 30°C rep1, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 110 | -"GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 111 | -"GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 112 | -"GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 3 | -"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 4 | -"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 5 | -"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 6 | -"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 7 | -"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 8 | -"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 9 | -"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 10 | -"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 11 | -"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 12 | -"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 13 | -"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 14 | -"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 15 | -"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 16 | -"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 17 | -"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 18 | -"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 19 | -"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 20 | -"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 21 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 2 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 22 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 3 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 23 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 4 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 24 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 5 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 6 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 7 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 8 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 9 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 10 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 11 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 12 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 13 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 14 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 15 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 16 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 17 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 18 | +"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 19 | +"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 20 | +"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 25 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 21 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 26 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 22 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 27 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 23 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -70,6 +66,41 @@ | ... | @@ -70,6 +66,41 @@ |
| 70 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" | 66 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" |
| 71 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" | 67 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" |
| 72 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" | 68 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" |
| 69 | +"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 70 | +"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 71 | +"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 72 | +"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 73 | +"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 74 | +"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 75 | +"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 76 | +"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 77 | +"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 78 | +"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 79 | +"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 80 | +"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 81 | +"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 82 | +"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 83 | +"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 84 | +"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 85 | +"GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 86 | +"GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 87 | +"GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 88 | +"GSE19053","GSM471485","SeqA old rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 89 | +"GSE19053","GSM471486","SeqA new rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 90 | +"GSE19053","GSM471487","SeqA new rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 91 | +"GSE19053","GSM471488","SeqA old deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 92 | +"GSE19053","GSM471489","SeqA new deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 93 | +"GSE19053","GSM471490","Crosslink","","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 94 | +"GSE19053","GSM471491","σ32 43°C rep1, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 95 | +"GSE19053","GSM471492","σ32 43°C rep2, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 96 | +"GSE19053","GSM471493","σ32 30°C rep1, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 97 | +"GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 98 | +"GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 99 | +"GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 100 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 101 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 102 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 103 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 73 | "GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 104 | "GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 74 | "GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 105 | "GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 75 | "GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 106 | "GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| ... | @@ -95,34 +126,3 @@ | ... | @@ -95,34 +126,3 @@ |
| 95 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 126 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 96 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 127 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 97 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 128 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 98 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 99 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 100 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 101 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 102 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 103 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 104 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 105 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 106 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 107 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 108 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 109 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 110 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 111 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 112 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 113 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 114 | -"GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 115 | -"GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 116 | -"GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 117 | -"GSE19053","GSM471485","SeqA old rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 118 | -"GSE19053","GSM471486","SeqA new rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 119 | -"GSE19053","GSM471487","SeqA new rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 120 | -"GSE19053","GSM471488","SeqA old deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 121 | -"GSE19053","GSM471489","SeqA new deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 122 | -"GSE19053","GSM471490","Crosslink","","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 123 | -"GSE19053","GSM471491","σ32 43°C rep1, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 124 | -"GSE19053","GSM471492","σ32 43°C rep2, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 125 | -"GSE19053","GSM471493","σ32 30°C rep1, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 126 | -"GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 127 | -"GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 128 | -"GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 3 | -"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 4 | -"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 5 | -"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 6 | -"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 7 | -"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 8 | -"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 9 | -"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 10 | -"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 11 | -"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 12 | -"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 13 | -"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 14 | -"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 15 | -"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 16 | -"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 17 | -"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 18 | -"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 19 | -"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 20 | -"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 21 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 23 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 24 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 25 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 26 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 27 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 28 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 29 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 30 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 31 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 32 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 33 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 2 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 34 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 3 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 35 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 4 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 36 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 5 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 6 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 7 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 8 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 9 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 10 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 11 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 12 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 13 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 14 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 15 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 16 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 17 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 18 | +"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 19 | +"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 20 | +"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 37 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 21 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 38 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 22 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 39 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 23 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -82,6 +66,53 @@ | ... | @@ -82,6 +66,53 @@ |
| 82 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" | 66 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" |
| 83 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" | 67 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" |
| 84 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" | 68 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" |
| 69 | +"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 70 | +"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 71 | +"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 72 | +"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 73 | +"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 74 | +"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 75 | +"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 76 | +"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 77 | +"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 78 | +"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 79 | +"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 80 | +"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 81 | +"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 82 | +"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 83 | +"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 84 | +"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 85 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 86 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 87 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 88 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 89 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 90 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 91 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 92 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 93 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 94 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 95 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 96 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 97 | +"GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 98 | +"GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 99 | +"GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 100 | +"GSE19053","GSM471485","SeqA old rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 101 | +"GSE19053","GSM471486","SeqA new rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 102 | +"GSE19053","GSM471487","SeqA new rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 103 | +"GSE19053","GSM471488","SeqA old deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 104 | +"GSE19053","GSM471489","SeqA new deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 105 | +"GSE19053","GSM471490","Crosslink","","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 106 | +"GSE19053","GSM471491","σ32 43°C rep1, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 107 | +"GSE19053","GSM471492","σ32 43°C rep2, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 108 | +"GSE19053","GSM471493","σ32 30°C rep1, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 109 | +"GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 110 | +"GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 111 | +"GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 112 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 113 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 114 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 115 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 85 | "GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 116 | "GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 86 | "GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 117 | "GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 87 | "GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 118 | "GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| ... | @@ -107,34 +138,3 @@ | ... | @@ -107,34 +138,3 @@ |
| 107 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 138 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 108 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 139 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 109 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 140 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 110 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 111 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 112 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 113 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 114 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 115 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 116 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 117 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 118 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 119 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 120 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 121 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 122 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 123 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 124 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 125 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 126 | -"GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 127 | -"GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 128 | -"GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 129 | -"GSE19053","GSM471485","SeqA old rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 130 | -"GSE19053","GSM471486","SeqA new rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 131 | -"GSE19053","GSM471487","SeqA new rep2","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 132 | -"GSE19053","GSM471488","SeqA old deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 133 | -"GSE19053","GSM471489","SeqA new deltaSeqA","SeqA","Escherichia coli str. K-12 substr. MG1655","","","ΔseqA","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 134 | -"GSE19053","GSM471490","Crosslink","","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | ||
| 135 | -"GSE19053","GSM471491","σ32 43°C rep1, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 136 | -"GSE19053","GSM471492","σ32 43°C rep2, σ32 ChIP DNA, heat","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ||
| 137 | -"GSE19053","GSM471493","σ32 30°C rep1, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 138 | -"GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 139 | -"GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | ||
| 140 | -"GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 3 | -"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 4 | -"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 5 | -"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 6 | -"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 7 | -"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 8 | -"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 9 | -"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 10 | -"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 11 | -"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 12 | -"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 13 | -"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 14 | -"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 15 | -"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 16 | -"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 17 | -"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 18 | -"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 19 | -"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 20 | -"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 21 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 23 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 24 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 25 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 26 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 27 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 28 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 29 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 30 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 31 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 32 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 33 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 2 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 34 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 3 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 35 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 4 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 36 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 5 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 6 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 7 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 8 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 9 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 10 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 11 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 12 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 13 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 14 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 15 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 16 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 17 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 18 | +"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 19 | +"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 20 | +"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 37 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 21 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 38 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 22 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 39 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 23 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -82,35 +66,6 @@ | ... | @@ -82,35 +66,6 @@ |
| 82 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" | 66 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" |
| 83 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" | 67 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" |
| 84 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" | 68 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" |
| 85 | -"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 86 | -"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 87 | -"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 88 | -"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 89 | -"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 90 | -"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 91 | -"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 92 | -"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 93 | -"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 94 | -"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 95 | -"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 96 | -"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 97 | -"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 98 | -"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 99 | -"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 100 | -"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 101 | -"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 102 | -"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 103 | -"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 104 | -"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 105 | -"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 106 | -"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 107 | -"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 108 | -"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 109 | -"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 110 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 111 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 112 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 113 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 114 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 69 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 115 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 70 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 116 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 71 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -131,18 +86,34 @@ | ... | @@ -131,18 +86,34 @@ |
| 131 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 86 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 132 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 87 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 133 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 88 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 134 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 89 | +"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 135 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 90 | +"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 136 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | 91 | +"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 137 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | 92 | +"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 138 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 93 | +"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 139 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 94 | +"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 140 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 95 | +"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 141 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 96 | +"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 142 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 97 | +"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 143 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 98 | +"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 144 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 99 | +"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 145 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 100 | +"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 101 | +"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 102 | +"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 103 | +"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 104 | +"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 105 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 106 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 107 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 108 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 112 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 113 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 114 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 115 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 116 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 146 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 117 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 147 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 118 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 148 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 119 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -158,3 +129,32 @@ | ... | @@ -158,3 +129,32 @@ |
| 158 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 129 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 159 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 130 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 160 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 131 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 132 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 133 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 134 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 135 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 136 | +"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 137 | +"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 138 | +"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 139 | +"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 140 | +"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 141 | +"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 142 | +"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 143 | +"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 144 | +"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 145 | +"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 146 | +"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 147 | +"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 148 | +"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 149 | +"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 150 | +"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 151 | +"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 152 | +"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 153 | +"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 154 | +"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 155 | +"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 156 | +"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 157 | +"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 158 | +"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 159 | +"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 160 | +"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 3 | -"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 4 | -"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 5 | -"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 6 | -"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 7 | -"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 8 | -"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 9 | -"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 10 | -"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 11 | -"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 12 | -"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 13 | -"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 14 | -"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 15 | -"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 16 | -"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 17 | -"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 18 | -"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 19 | -"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 20 | -"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 21 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 23 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 24 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 25 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 26 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 27 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 28 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 29 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 30 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 31 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 32 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 33 | -"GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 34 | -"GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 35 | -"GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 36 | -"GSE55199","GSM1331412","LB 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 37 | -"GSE55199","GSM1331413","LB 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 38 | -"GSE55199","GSM1331414","LB 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 39 | -"GSE55199","GSM1331415","LB 2.0 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 40 | -"GSE55199","GSM1331416","LB 2.0 B1 TEX neg L2 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 41 | -"GSE55199","GSM1331417","LB 2.0 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 42 | -"GSE55199","GSM1331418","LB 2.0 B1 TEX pos L2 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 43 | -"GSE55199","GSM1331419","LB 2.0 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 44 | -"GSE55199","GSM1331420","LB 2.0 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 45 | -"GSE55199","GSM1331421","LB 2.0 B2 TEX neg L2 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 46 | -"GSE55199","GSM1331422","LB 2.0 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 47 | -"GSE55199","GSM1331423","LB 2.0 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 48 | -"GSE55199","GSM1331424","LB 2.0 B2 TEX pos L2 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 49 | -"GSE55199","GSM1331425","M63 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 50 | -"GSE55199","GSM1331426","M63 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 51 | -"GSE55199","GSM1331427","M63 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 52 | -"GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 53 | -"GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 54 | -"GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 55 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 2 | "GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 56 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 3 | "GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 57 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 4 | "GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 58 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | 5 | "GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" |
| 6 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 7 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 8 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 9 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 10 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 11 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 12 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 13 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 14 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 15 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 16 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 17 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 18 | +"GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 19 | +"GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 20 | +"GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | ||
| 59 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 21 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 60 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 22 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 61 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 23 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -104,35 +66,6 @@ | ... | @@ -104,35 +66,6 @@ |
| 104 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" | 66 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" |
| 105 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" | 67 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" |
| 106 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" | 68 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" |
| 107 | -"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 108 | -"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 109 | -"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 110 | -"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 111 | -"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 112 | -"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 113 | -"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 114 | -"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 115 | -"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 116 | -"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 117 | -"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 118 | -"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 119 | -"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 120 | -"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 121 | -"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 122 | -"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 123 | -"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 124 | -"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 125 | -"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 126 | -"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 127 | -"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 128 | -"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 129 | -"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 130 | -"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 131 | -"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 132 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 133 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 134 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 135 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 136 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 69 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 137 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 70 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 138 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 71 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -153,18 +86,34 @@ | ... | @@ -153,18 +86,34 @@ |
| 153 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 86 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 154 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 87 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 155 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 88 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 156 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 89 | +"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 157 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | 90 | +"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 158 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | 91 | +"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 159 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | 92 | +"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 160 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 93 | +"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 161 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 94 | +"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 162 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 95 | +"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 163 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 96 | +"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 164 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 97 | +"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 165 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | 98 | +"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 166 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 99 | +"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 167 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | 100 | +"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 101 | +"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 102 | +"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 103 | +"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 104 | +"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 105 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 106 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 107 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 108 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 112 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 113 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 114 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 115 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 116 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 168 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 117 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 169 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 118 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 170 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 119 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -180,3 +129,54 @@ | ... | @@ -180,3 +129,54 @@ |
| 180 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 129 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 181 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 130 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 182 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 131 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 132 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 133 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 134 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 135 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 136 | +"GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 137 | +"GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 138 | +"GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 139 | +"GSE55199","GSM1331412","LB 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 140 | +"GSE55199","GSM1331413","LB 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 141 | +"GSE55199","GSM1331414","LB 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 142 | +"GSE55199","GSM1331415","LB 2.0 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 143 | +"GSE55199","GSM1331416","LB 2.0 B1 TEX neg L2 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 144 | +"GSE55199","GSM1331417","LB 2.0 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 145 | +"GSE55199","GSM1331418","LB 2.0 B1 TEX pos L2 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 146 | +"GSE55199","GSM1331419","LB 2.0 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 147 | +"GSE55199","GSM1331420","LB 2.0 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 148 | +"GSE55199","GSM1331421","LB 2.0 B2 TEX neg L2 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 149 | +"GSE55199","GSM1331422","LB 2.0 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 150 | +"GSE55199","GSM1331423","LB 2.0 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 151 | +"GSE55199","GSM1331424","LB 2.0 B2 TEX pos L2 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of 2.0","stationary","","","" | ||
| 152 | +"GSE55199","GSM1331425","M63 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 153 | +"GSE55199","GSM1331426","M63 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 154 | +"GSE55199","GSM1331427","M63 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 155 | +"GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 156 | +"GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 157 | +"GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | ||
| 158 | +"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 159 | +"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 160 | +"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 161 | +"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 162 | +"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 163 | +"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 164 | +"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 165 | +"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 166 | +"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 167 | +"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 168 | +"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 169 | +"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 170 | +"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 171 | +"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 172 | +"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 173 | +"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 174 | +"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 175 | +"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 176 | +"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 177 | +"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 178 | +"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 179 | +"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 180 | +"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 181 | +"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 182 | +"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 3 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 4 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 5 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 2 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 6 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 3 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 7 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 4 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 8 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 5 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 6 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 7 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 8 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 9 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 10 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 11 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 12 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 15 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 16 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 17 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 9 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 18 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 10 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 19 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 11 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -78,10 +70,24 @@ | ... | @@ -78,10 +70,24 @@ |
| 78 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 70 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 79 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 71 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 80 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 72 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 81 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 73 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 82 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 74 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 83 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 75 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 84 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 76 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 77 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 78 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 79 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 80 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 81 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 82 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 83 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 84 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 85 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 86 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 87 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 88 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 89 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 90 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ||
| 85 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 91 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 86 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 92 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 87 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 93 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -97,6 +103,34 @@ | ... | @@ -97,6 +103,34 @@ |
| 97 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 103 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 98 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 104 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 99 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 105 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 106 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 107 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 108 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 112 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 113 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 114 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 115 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 116 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 117 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 118 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 119 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 120 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 121 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 122 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 123 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 124 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 125 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 126 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 127 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 128 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 129 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 130 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 131 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 132 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 133 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 100 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 134 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 101 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 135 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 102 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 136 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -164,37 +198,3 @@ | ... | @@ -164,37 +198,3 @@ |
| 164 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 198 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 165 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 199 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 166 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 200 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 167 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 168 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 169 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 170 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 171 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 172 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 173 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 174 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 175 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 176 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 177 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 178 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 179 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 180 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 181 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 182 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 183 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | ||
| 184 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | ||
| 185 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | ||
| 186 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | ||
| 187 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 188 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 189 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 190 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 191 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 192 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 193 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 194 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 195 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 196 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 197 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 198 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 199 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 200 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 3 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 4 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 5 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 2 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 6 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 3 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 7 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 4 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 8 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 5 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 6 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 7 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 8 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 9 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 10 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 11 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 12 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 15 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 16 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 17 | -"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 18 | -"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 19 | -"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 20 | -"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 21 | -"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 22 | -"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 23 | -"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 24 | -"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 25 | -"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 26 | -"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 27 | -"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 28 | -"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 29 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 9 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 30 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 10 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 31 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 11 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -90,10 +70,24 @@ | ... | @@ -90,10 +70,24 @@ |
| 90 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 70 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 91 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 71 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 92 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 72 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 93 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 73 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 94 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 74 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 95 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 75 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 96 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 76 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 77 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 78 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 79 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 80 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 81 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 82 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 83 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 84 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 85 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 86 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 87 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 88 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 89 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 90 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ||
| 97 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 91 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 98 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 92 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 99 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 93 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -109,6 +103,46 @@ | ... | @@ -109,6 +103,46 @@ |
| 109 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 103 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 110 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 104 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 111 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 105 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 106 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 107 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 108 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 112 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 113 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 114 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 115 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 116 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 117 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 118 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 119 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 120 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 121 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 122 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 123 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 124 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 125 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 126 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 127 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 128 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 129 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 130 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 131 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 132 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 133 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 134 | +"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 135 | +"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 136 | +"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 137 | +"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 138 | +"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 139 | +"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 140 | +"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 141 | +"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 142 | +"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 143 | +"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 144 | +"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 145 | +"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 112 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 146 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 113 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 147 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 114 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 148 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -176,37 +210,3 @@ | ... | @@ -176,37 +210,3 @@ |
| 176 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 210 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 177 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 211 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 178 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 212 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 179 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 180 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 181 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 182 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 183 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 184 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 185 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 186 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 187 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 188 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 189 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 190 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 191 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 192 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 193 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 194 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 195 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | ||
| 196 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | ||
| 197 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | ||
| 198 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | ||
| 199 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 200 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 201 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 202 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 203 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 204 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 205 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 206 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 207 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 208 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 209 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 210 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 211 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 212 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 3 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 4 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 5 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 2 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 6 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 3 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 7 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 4 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 8 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 5 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 6 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 7 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 8 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 9 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 10 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 11 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 12 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 15 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 16 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 17 | -"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 18 | -"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 19 | -"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 20 | -"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 21 | -"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 22 | -"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 23 | -"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 24 | -"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 25 | -"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 26 | -"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 27 | -"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 28 | -"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 29 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 9 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 30 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 10 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 31 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 11 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -90,10 +70,24 @@ | ... | @@ -90,10 +70,24 @@ |
| 90 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 70 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 91 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 71 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 92 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 72 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 93 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 73 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 94 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 74 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 95 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 75 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 96 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 76 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 77 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 78 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 79 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 80 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 81 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 82 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 83 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 84 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 85 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 86 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 87 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 88 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 89 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 90 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ||
| 97 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 91 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 98 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 92 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 99 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 93 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -109,6 +103,48 @@ | ... | @@ -109,6 +103,48 @@ |
| 109 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 103 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 110 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 104 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 111 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 105 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 106 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 107 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 108 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 112 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 113 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 114 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 115 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 116 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 117 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 118 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 119 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 120 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 121 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 122 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 123 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 124 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 125 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 126 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 127 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 128 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 129 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 130 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 131 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 132 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 133 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 134 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 135 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 136 | +"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 137 | +"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 138 | +"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 139 | +"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 140 | +"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 141 | +"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 142 | +"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 143 | +"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 144 | +"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 145 | +"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 146 | +"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 147 | +"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 112 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 148 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 113 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 149 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 114 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 150 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -129,8 +165,6 @@ | ... | @@ -129,8 +165,6 @@ |
| 129 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 165 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 130 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 166 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 131 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 167 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 132 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 133 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 134 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 168 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 135 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 169 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 136 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 170 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -178,37 +212,3 @@ | ... | @@ -178,37 +212,3 @@ |
| 178 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 212 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 179 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 213 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 180 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 214 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 181 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 182 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 183 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 184 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 185 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 186 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 187 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 188 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 189 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 190 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 191 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 192 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 193 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 194 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 195 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 196 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 197 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | ||
| 198 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | ||
| 199 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | ||
| 200 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | ||
| 201 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 202 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 203 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 204 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 205 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 206 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 207 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 208 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 209 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 210 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 211 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 212 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 213 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 214 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 3 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 4 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 5 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 2 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 6 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 3 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 7 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 4 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 8 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 5 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 6 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 7 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 8 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 9 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 10 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 11 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 12 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 15 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 16 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 17 | -"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 18 | -"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 19 | -"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 20 | -"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 21 | -"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 22 | -"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 23 | -"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 24 | -"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 25 | -"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 26 | -"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 27 | -"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 28 | -"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 29 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 9 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 30 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 10 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 31 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 11 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -90,22 +70,24 @@ | ... | @@ -90,22 +70,24 @@ |
| 90 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 70 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 91 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 71 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 92 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 72 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 93 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 73 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 94 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 74 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 95 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 75 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 96 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 76 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 97 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 77 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 98 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 78 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 99 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 79 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 100 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 80 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 101 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 81 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" |
| 102 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 82 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" |
| 103 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 83 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" |
| 104 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 84 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" |
| 105 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 85 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" |
| 106 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 86 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" |
| 107 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 87 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" |
| 108 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 88 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" |
| 89 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 90 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ||
| 109 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 91 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 110 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 92 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 111 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 93 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -121,6 +103,48 @@ | ... | @@ -121,6 +103,48 @@ |
| 121 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 103 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 122 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 104 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 123 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 105 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 106 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 107 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 108 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 112 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 113 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 114 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 115 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 116 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 117 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 118 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 119 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 120 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 121 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 122 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 123 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 124 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 125 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 126 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 127 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 128 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 129 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 130 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 131 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 132 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 133 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 134 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 135 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 136 | +"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 137 | +"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 138 | +"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 139 | +"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 140 | +"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 141 | +"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 142 | +"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 143 | +"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 144 | +"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 145 | +"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 146 | +"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 147 | +"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 124 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 148 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 125 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 149 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 126 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 150 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -141,8 +165,18 @@ | ... | @@ -141,8 +165,18 @@ |
| 141 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 165 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 142 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 166 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 143 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 167 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 144 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | 168 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 145 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | 169 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 170 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 171 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 172 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 173 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 174 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 175 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 176 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 177 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 178 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 179 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 146 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 180 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 147 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 181 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 148 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 182 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -190,37 +224,3 @@ | ... | @@ -190,37 +224,3 @@ |
| 190 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 224 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 191 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 225 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 192 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 226 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 193 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 194 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 195 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 196 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 197 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 198 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 199 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 200 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 201 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 202 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 203 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 204 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 205 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 206 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 207 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 208 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 209 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | ||
| 210 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | ||
| 211 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | ||
| 212 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | ||
| 213 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 214 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 215 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 216 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 217 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 218 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 219 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 220 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 221 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 222 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 223 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 224 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 225 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 226 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 6 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 7 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 8 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 18 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 19 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 20 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 21 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 23 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 24 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 25 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 26 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 27 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 28 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 29 | -"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 30 | -"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 31 | -"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 32 | -"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 33 | -"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 34 | -"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 35 | -"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 36 | -"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 37 | -"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 38 | -"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 39 | -"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 40 | -"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 41 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 9 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 42 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 10 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 43 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 11 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -102,22 +70,24 @@ | ... | @@ -102,22 +70,24 @@ |
| 102 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 70 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 103 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 71 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 104 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 72 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 105 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 73 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 106 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 74 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 107 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 75 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 108 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 76 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 109 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 77 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 110 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 78 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 111 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 79 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 112 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 80 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 113 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 81 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" |
| 114 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 82 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" |
| 115 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 83 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" |
| 116 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 84 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" |
| 117 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 85 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" |
| 118 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 86 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" |
| 119 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 87 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" |
| 120 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 88 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" |
| 89 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 90 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ||
| 121 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 91 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 122 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 92 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 123 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 93 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -133,6 +103,60 @@ | ... | @@ -133,6 +103,60 @@ |
| 133 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 103 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 134 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 104 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 135 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 105 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 106 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 107 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 108 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 112 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 113 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 114 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 115 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 116 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 117 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 118 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 119 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 120 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 121 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 122 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 123 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 124 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 125 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 126 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 127 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 128 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 129 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 130 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 131 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 132 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 133 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 134 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 135 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 136 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 137 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 138 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 139 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 140 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 141 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 142 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 143 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 144 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 145 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 146 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 147 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 148 | +"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 149 | +"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 150 | +"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 151 | +"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 152 | +"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 153 | +"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 154 | +"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 155 | +"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 156 | +"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 157 | +"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 158 | +"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 159 | +"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 136 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 160 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 137 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 161 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 138 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 162 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -153,8 +177,18 @@ | ... | @@ -153,8 +177,18 @@ |
| 153 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 177 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 154 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 178 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 155 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 179 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 156 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | 180 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 157 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | 181 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 182 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 183 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 184 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 185 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 186 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 187 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 188 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 189 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 190 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 191 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 158 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 192 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 159 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 193 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 160 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 194 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -202,37 +236,3 @@ | ... | @@ -202,37 +236,3 @@ |
| 202 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 236 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 203 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 237 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 204 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 238 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 205 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 206 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 207 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 208 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 209 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 210 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 211 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 212 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 213 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 214 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 215 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 216 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 217 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 218 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 219 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 220 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 221 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | ||
| 222 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | ||
| 223 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | ||
| 224 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | ||
| 225 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 226 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 227 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 228 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 229 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 230 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 231 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 232 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 233 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 234 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 235 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 236 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 237 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 238 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 6 | +"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 7 | +"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 8 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 9 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 10 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 11 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 12 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 13 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 14 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 18 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 19 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 20 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 21 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 23 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 24 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 25 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 26 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 27 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 28 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 29 | -"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 30 | -"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 31 | -"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 32 | -"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 33 | -"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 34 | -"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 35 | -"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 36 | -"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 37 | -"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 38 | -"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 39 | -"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 40 | -"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 41 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 15 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 42 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 16 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 43 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 17 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -102,22 +76,24 @@ | ... | @@ -102,22 +76,24 @@ |
| 102 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 76 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 103 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 77 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 104 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 78 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 105 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 79 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 106 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 80 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 107 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 81 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 108 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 82 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 109 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 83 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 110 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 84 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 111 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 85 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 112 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 86 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 113 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 87 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" |
| 114 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 88 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" |
| 115 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 89 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" |
| 116 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 90 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" |
| 117 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 91 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" |
| 118 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 92 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" |
| 119 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 93 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" |
| 120 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 94 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" |
| 95 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 96 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ||
| 121 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 97 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 122 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 98 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 123 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 99 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -133,12 +109,60 @@ | ... | @@ -133,12 +109,60 @@ |
| 133 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 109 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 134 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 110 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 135 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 111 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 136 | -"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 112 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 137 | -"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 113 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 138 | -"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 114 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 139 | -"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 115 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 140 | -"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 116 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 141 | -"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 117 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 118 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 119 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 120 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 121 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 122 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 123 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 124 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 125 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 126 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 127 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 128 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 129 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 130 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 131 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 132 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 133 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 134 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 135 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 136 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 137 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 138 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 139 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 140 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 141 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 142 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 143 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 144 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 145 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 146 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 147 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 148 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 149 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 150 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 151 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 152 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 153 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 154 | +"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 155 | +"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 156 | +"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 157 | +"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 158 | +"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 159 | +"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 160 | +"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 161 | +"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 162 | +"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 163 | +"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 164 | +"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 165 | +"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 142 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 166 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 143 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 167 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 144 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 168 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -159,8 +183,18 @@ | ... | @@ -159,8 +183,18 @@ |
| 159 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 183 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 160 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 184 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 161 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 185 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 162 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | 186 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 163 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | 187 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 188 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 189 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 190 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 191 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 192 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 193 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 194 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 195 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 196 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 197 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 164 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 198 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 165 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 199 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 166 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 200 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -208,37 +242,3 @@ | ... | @@ -208,37 +242,3 @@ |
| 208 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 242 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 209 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 243 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 210 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 244 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 211 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 212 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 213 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 214 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 215 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 216 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 217 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 218 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 219 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 220 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 221 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 222 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 223 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 224 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 225 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 226 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 227 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | ||
| 228 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | ||
| 229 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | ||
| 230 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | ||
| 231 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 232 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 233 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 234 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 235 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 236 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 237 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 238 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 239 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 240 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 241 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 242 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 243 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 244 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 6 | +"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 7 | +"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 8 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 9 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 10 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 11 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 12 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 13 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 14 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 18 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 19 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 20 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 21 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 23 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 24 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 25 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 26 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 27 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 28 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 29 | -"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 30 | -"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 31 | -"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 32 | -"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 33 | -"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 34 | -"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 35 | -"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 36 | -"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 37 | -"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 38 | -"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 39 | -"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 40 | -"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 41 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 15 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 42 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 16 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 43 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 17 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -102,22 +76,32 @@ | ... | @@ -102,22 +76,32 @@ |
| 102 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 76 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 103 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 77 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 104 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 78 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 105 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 79 | +"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 106 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 80 | +"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 107 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 81 | +"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 108 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 82 | +"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 109 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 83 | +"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 110 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 84 | +"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 111 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 85 | +"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 112 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 86 | +"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 113 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 87 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 114 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 88 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 115 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 89 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 116 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 90 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 117 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 91 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 118 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 92 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 119 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 93 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 120 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 94 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 95 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 96 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 97 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 98 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 99 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 100 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 101 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 102 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 103 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 104 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ||
| 121 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 105 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 122 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 106 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 123 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 107 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -133,12 +117,60 @@ | ... | @@ -133,12 +117,60 @@ |
| 133 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 117 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 134 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 118 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 135 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 119 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 136 | -"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 120 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 137 | -"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 121 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 138 | -"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 122 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 139 | -"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 123 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 140 | -"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 124 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 141 | -"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 125 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 126 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 127 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 128 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 129 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 130 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 131 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 132 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 133 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 134 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 135 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 136 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 137 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 138 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 139 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 140 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 141 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 142 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 143 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 144 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 145 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 146 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 147 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 148 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 149 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 150 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 151 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 152 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 153 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 154 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 155 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 156 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 157 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 158 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 159 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 160 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 161 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 162 | +"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 163 | +"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 164 | +"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 165 | +"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 166 | +"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 167 | +"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 168 | +"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 169 | +"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 170 | +"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 171 | +"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 172 | +"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 173 | +"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 142 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 174 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 143 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 175 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 144 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 176 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -159,8 +191,18 @@ | ... | @@ -159,8 +191,18 @@ |
| 159 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 191 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 160 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 192 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 161 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 193 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 162 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | 194 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 163 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | 195 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 196 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 197 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 198 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 199 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 200 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 201 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 202 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 203 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 204 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 205 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 164 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 206 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 165 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 207 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 166 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 208 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -208,45 +250,3 @@ | ... | @@ -208,45 +250,3 @@ |
| 208 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 250 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 209 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 251 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 210 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 252 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 211 | -"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 212 | -"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 213 | -"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 214 | -"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 215 | -"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 216 | -"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 217 | -"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 218 | -"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 219 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 220 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 221 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 222 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 223 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 224 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 225 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 226 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 227 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 228 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 229 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 230 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 231 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 232 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 233 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 234 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 235 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | ||
| 236 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | ||
| 237 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | ||
| 238 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | ||
| 239 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 240 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 241 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 242 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 243 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 244 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 245 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 246 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 247 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 248 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 249 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 250 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 251 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 252 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 6 | +"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 7 | +"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 8 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 9 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 10 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 11 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 12 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 13 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 14 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 18 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 19 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 20 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 21 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 23 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 24 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 25 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 26 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 27 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 28 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 29 | -"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 30 | -"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 31 | -"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 32 | -"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 33 | -"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 34 | -"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 35 | -"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 36 | -"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 37 | -"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 38 | -"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 39 | -"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 40 | -"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 41 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 15 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 42 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 16 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 43 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 17 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -102,22 +76,32 @@ | ... | @@ -102,22 +76,32 @@ |
| 102 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 76 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 103 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 77 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 104 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 78 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 105 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 79 | +"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 106 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 80 | +"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 107 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 81 | +"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 108 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 82 | +"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 109 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 83 | +"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 110 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 84 | +"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 111 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 85 | +"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 112 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 86 | +"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 113 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 87 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 114 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 88 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 115 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 89 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 116 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 90 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 117 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 91 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 118 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 92 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 119 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 93 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 120 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 94 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 95 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 96 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 97 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 98 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 99 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 100 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 101 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 102 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 103 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 104 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ||
| 121 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 105 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 122 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 106 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 123 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 107 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -133,20 +117,60 @@ | ... | @@ -133,20 +117,60 @@ |
| 133 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 117 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 134 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 118 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 135 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 119 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 136 | -"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 120 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 137 | -"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 121 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 138 | -"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 122 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 139 | -"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 123 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 140 | -"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 124 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 141 | -"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 125 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 142 | -"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 126 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 143 | -"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 127 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 144 | -"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 128 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 145 | -"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 129 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 146 | -"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 130 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 147 | -"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 131 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 148 | -"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 132 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" |
| 149 | -"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 133 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" |
| 134 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 135 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 136 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 137 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 138 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 139 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 140 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 141 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 142 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 143 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 144 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 145 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 146 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 147 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 148 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 149 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 150 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 151 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 152 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 153 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 154 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 155 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 156 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 157 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 158 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 159 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 160 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 161 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 162 | +"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 163 | +"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 164 | +"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 165 | +"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 166 | +"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 167 | +"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 168 | +"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 169 | +"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 170 | +"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 171 | +"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 172 | +"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 173 | +"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 150 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 174 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 151 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 175 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 152 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 176 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -167,8 +191,26 @@ | ... | @@ -167,8 +191,26 @@ |
| 167 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 191 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 168 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 192 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 169 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 193 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 170 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | 194 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 171 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | 195 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 196 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 197 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 198 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 199 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 200 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 201 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 202 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 203 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 204 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 205 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 206 | +"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 207 | +"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 208 | +"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 209 | +"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 210 | +"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 211 | +"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 212 | +"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 213 | +"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 172 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 214 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 173 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 215 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 174 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 216 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -216,45 +258,3 @@ | ... | @@ -216,45 +258,3 @@ |
| 216 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 258 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 217 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 259 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 218 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 260 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 219 | -"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 220 | -"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 221 | -"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 222 | -"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 223 | -"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 224 | -"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 225 | -"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 226 | -"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 227 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 228 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 229 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 230 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 231 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 232 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 233 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 234 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 235 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 236 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 237 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 238 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 239 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 240 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 241 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 242 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 243 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | ||
| 244 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | ||
| 245 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | ||
| 246 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | ||
| 247 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 248 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 249 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 250 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 251 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 252 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 253 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 254 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 255 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 256 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 257 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 258 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 259 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 260 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 6 | +"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 7 | +"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 8 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 9 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 10 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 11 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 12 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 13 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 14 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 18 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 19 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 20 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 21 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 23 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 24 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 25 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 26 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 27 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 28 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 29 | -"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 30 | -"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 31 | -"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 32 | -"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 33 | -"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 34 | -"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 35 | -"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 36 | -"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 37 | -"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 38 | -"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 39 | -"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 40 | -"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 41 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 15 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 42 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 16 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 43 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 17 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -102,22 +76,32 @@ | ... | @@ -102,22 +76,32 @@ |
| 102 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 76 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 103 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 77 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 104 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 78 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 105 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 79 | +"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 106 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 80 | +"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 107 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 81 | +"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 108 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 82 | +"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 109 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 83 | +"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 110 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 84 | +"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 111 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 85 | +"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 112 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 86 | +"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 113 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 87 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 114 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 88 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 115 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 89 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 116 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 90 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 117 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 91 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 118 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 92 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 119 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 93 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 120 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 94 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 95 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 96 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 97 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 98 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 99 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 100 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 101 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 102 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 103 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 104 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ||
| 121 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 105 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 122 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 106 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 123 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 107 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -133,20 +117,60 @@ | ... | @@ -133,20 +117,60 @@ |
| 133 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 117 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 134 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 118 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 135 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 119 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 136 | -"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 120 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 137 | -"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 121 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 138 | -"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 122 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 139 | -"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 123 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 140 | -"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 124 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 141 | -"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 125 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 142 | -"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 126 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 143 | -"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 127 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 144 | -"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 128 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 145 | -"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 129 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 146 | -"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 130 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 147 | -"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 131 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 148 | -"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 132 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" |
| 149 | -"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 133 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" |
| 134 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 135 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 136 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 137 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 138 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 139 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 140 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 141 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 142 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 143 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 144 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 145 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 146 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 147 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 148 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 149 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 150 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 151 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 152 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 153 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 154 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 155 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 156 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 157 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 158 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 159 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 160 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 161 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 162 | +"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 163 | +"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 164 | +"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 165 | +"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 166 | +"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 167 | +"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 168 | +"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 169 | +"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 170 | +"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 171 | +"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 172 | +"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 173 | +"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 150 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 174 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 151 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 175 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 152 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 176 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -167,8 +191,34 @@ | ... | @@ -167,8 +191,34 @@ |
| 167 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 191 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 168 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 192 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 169 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 193 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 170 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | 194 | +"GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 171 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | 195 | +"GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 196 | +"GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 197 | +"GSE66481","GSM1623163","ΔgadE pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 198 | +"GSE66481","GSM1623164","ΔgadW pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 199 | +"GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 200 | +"GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 201 | +"GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 202 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | ||
| 203 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | ||
| 204 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 205 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 206 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 207 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 208 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 209 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 210 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 211 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 212 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 213 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 214 | +"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 215 | +"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 216 | +"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 217 | +"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 218 | +"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 219 | +"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 220 | +"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 221 | +"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 172 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 222 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 173 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 223 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 174 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 224 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -216,53 +266,3 @@ | ... | @@ -216,53 +266,3 @@ |
| 216 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 266 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 217 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 267 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 218 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 268 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 219 | -"GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 220 | -"GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 221 | -"GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 222 | -"GSE66481","GSM1623163","ΔgadE pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 223 | -"GSE66481","GSM1623164","ΔgadW pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 224 | -"GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 225 | -"GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 226 | -"GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 227 | -"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 228 | -"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 229 | -"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 230 | -"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 231 | -"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 232 | -"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 233 | -"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 234 | -"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 235 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 236 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 237 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 238 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 239 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 240 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 241 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 242 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 243 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 244 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 245 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 246 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 247 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 248 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 249 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 250 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 251 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | ||
| 252 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | ||
| 253 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | ||
| 254 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | ||
| 255 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 256 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 257 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 258 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 259 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 260 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 261 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 262 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 263 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 264 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 265 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 266 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 267 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 268 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 6 | +"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 7 | +"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" |
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 8 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 9 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 10 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 11 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 12 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 13 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 14 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 18 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 19 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 20 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 21 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 23 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 24 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 25 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 26 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 27 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 28 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 29 | -"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 30 | -"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 31 | -"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 32 | -"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 33 | -"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 34 | -"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 35 | -"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 36 | -"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 37 | -"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 38 | -"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 39 | -"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 40 | -"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 41 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 15 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 42 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 16 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 43 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 17 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -102,36 +76,32 @@ | ... | @@ -102,36 +76,32 @@ |
| 102 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 76 | "GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 103 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 77 | "GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 104 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 78 | "GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" |
| 105 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 79 | +"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 106 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 80 | +"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 107 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 81 | +"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 108 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | 82 | +"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 109 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 83 | +"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 110 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | 84 | +"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 111 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 85 | +"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 112 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 86 | +"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" |
| 113 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 87 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 114 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 88 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 115 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 89 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 116 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | 90 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 117 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 91 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 118 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | 92 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 119 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 93 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 120 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | 94 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 121 | -"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | 95 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" |
| 122 | -"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | 96 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" |
| 123 | -"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | 97 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" |
| 124 | -"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | 98 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" |
| 125 | -"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | 99 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" |
| 126 | -"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | 100 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" |
| 127 | -"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | 101 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" |
| 128 | -"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | 102 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" |
| 129 | -"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | 103 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" |
| 130 | -"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | 104 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" |
| 131 | -"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 132 | -"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 133 | -"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 134 | -"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 135 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 105 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 136 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 106 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 137 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 107 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -147,20 +117,74 @@ | ... | @@ -147,20 +117,74 @@ |
| 147 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 117 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 148 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 118 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 149 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 119 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 150 | -"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 120 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 151 | -"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 121 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 152 | -"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 122 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 153 | -"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 123 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 154 | -"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 124 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 155 | -"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 125 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 156 | -"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 126 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 157 | -"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 127 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" |
| 158 | -"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 128 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 159 | -"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 129 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 160 | -"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 130 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 161 | -"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 131 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" |
| 162 | -"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 132 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" |
| 163 | -"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 133 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" |
| 134 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 135 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 136 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 137 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 138 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 139 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 140 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 141 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 142 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 143 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 144 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 145 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 146 | +"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 147 | +"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 148 | +"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 149 | +"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 150 | +"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 151 | +"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 152 | +"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 153 | +"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 154 | +"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 155 | +"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 156 | +"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 157 | +"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 158 | +"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 159 | +"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 160 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 161 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 162 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 163 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 164 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 165 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 166 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 167 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 168 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 169 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 170 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 171 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 172 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 173 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 174 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 175 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 176 | +"GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | ||
| 177 | +"GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | ||
| 178 | +"GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | ||
| 179 | +"GSE55366","GSM1334767","","","","","","","","","","","","","","","","","","","" | ||
| 180 | +"GSE55366","GSM1334768","","","","","","","","","","","","","","","","","","","" | ||
| 181 | +"GSE55366","GSM1334769","","","","","","","","","","","","","","","","","","","" | ||
| 182 | +"GSE55366","GSM1334770","","","","","","","","","","","","","","","","","","","" | ||
| 183 | +"GSE55366","GSM1334771","","","","","","","","","","","","","","","","","","","" | ||
| 184 | +"GSE55366","GSM1334772","","","","","","","","","","","","","","","","","","","" | ||
| 185 | +"GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | ||
| 186 | +"GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | ||
| 187 | +"GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | ||
| 164 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 188 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 165 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 189 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 166 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 190 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -181,8 +205,34 @@ | ... | @@ -181,8 +205,34 @@ |
| 181 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 205 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 182 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 206 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 183 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 207 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 184 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | 208 | +"GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 185 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | 209 | +"GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 210 | +"GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 211 | +"GSE66481","GSM1623163","ΔgadE pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 212 | +"GSE66481","GSM1623164","ΔgadW pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 213 | +"GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 214 | +"GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 215 | +"GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 216 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | ||
| 217 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | ||
| 218 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 219 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 220 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 221 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 222 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 223 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 224 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 225 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 226 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 227 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 228 | +"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 229 | +"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 230 | +"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 231 | +"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 232 | +"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 233 | +"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 234 | +"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 235 | +"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 186 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 236 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 187 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 237 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 188 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 238 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -230,53 +280,3 @@ | ... | @@ -230,53 +280,3 @@ |
| 230 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 280 | "GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 231 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | 281 | "GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 232 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | 282 | "GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 233 | -"GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 234 | -"GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 235 | -"GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 236 | -"GSE66481","GSM1623163","ΔgadE pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 237 | -"GSE66481","GSM1623164","ΔgadW pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 238 | -"GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 239 | -"GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 240 | -"GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 241 | -"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 242 | -"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 243 | -"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 244 | -"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 245 | -"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 246 | -"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 247 | -"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 248 | -"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 249 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 250 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 251 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 252 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 253 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 254 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 255 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 256 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 257 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 258 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 259 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 260 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 261 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 262 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 263 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 264 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 265 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | ||
| 266 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | ||
| 267 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | ||
| 268 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | ||
| 269 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | ||
| 270 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | ||
| 271 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 272 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 273 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 274 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 275 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 276 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 277 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 278 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 279 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 280 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 281 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 282 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 6 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 7 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 8 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE74931","GSM1937963","∆fur Anaerobic [IP vs nput]","affinity purified anti-Fur antibody","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","","","","","","mid-log","","","" | ||
| 18 | -"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 19 | -"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 20 | -"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 21 | -"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 22 | -"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 23 | -"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 24 | -"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 25 | -"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 26 | -"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 27 | -"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 28 | -"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 29 | -"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 30 | -"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 31 | -"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 32 | -"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 33 | -"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 34 | -"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 35 | -"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 36 | -"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 37 | -"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 38 | -"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 39 | -"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 40 | -"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 41 | -"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 42 | -"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 43 | -"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 44 | -"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 45 | -"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 46 | -"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 47 | -"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 48 | -"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 49 | -"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 50 | -"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 51 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 52 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 53 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 54 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 55 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 56 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 57 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 58 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 59 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 60 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 61 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 62 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 63 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 64 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 65 | -"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 66 | -"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 67 | -"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 68 | -"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 69 | -"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 70 | -"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 71 | -"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 72 | -"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 73 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 74 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 75 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 76 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 77 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 78 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 79 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 80 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 81 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 82 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 83 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 84 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 85 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 86 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 87 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 88 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 89 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 9 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 90 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 10 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 91 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 11 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -134,52 +54,24 @@ | ... | @@ -134,52 +54,24 @@ |
| 134 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" | 54 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" |
| 135 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" | 55 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" |
| 136 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" | 56 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" |
| 137 | -"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 57 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 138 | -"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 58 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 139 | -"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 59 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 140 | -"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 60 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 141 | -"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 61 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 142 | -"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 62 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 143 | -"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 63 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 144 | -"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 64 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 145 | -"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 65 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" |
| 146 | -"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 66 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" |
| 147 | -"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 67 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" |
| 148 | -"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 68 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" |
| 149 | -"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 69 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" |
| 150 | -"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 70 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" |
| 151 | -"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 71 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" |
| 152 | -"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 72 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" |
| 153 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 73 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" |
| 154 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 74 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" |
| 155 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 156 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 157 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 158 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 159 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 160 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 161 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 162 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 163 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 164 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 165 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 166 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 167 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 168 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 169 | -"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 170 | -"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 171 | -"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 172 | -"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 173 | -"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 174 | -"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 175 | -"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 176 | -"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 177 | -"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 178 | -"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 179 | -"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 180 | -"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 181 | -"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 182 | -"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 183 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 75 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 184 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 76 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 185 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 77 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -195,6 +87,26 @@ | ... | @@ -195,6 +87,26 @@ |
| 195 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 87 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 196 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 88 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 197 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 89 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 90 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 91 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 92 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 93 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 94 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 95 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 96 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 97 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 98 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 99 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 100 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 101 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 102 | +"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 103 | +"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 104 | +"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 105 | +"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 106 | +"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 107 | +"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 108 | +"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 109 | +"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 198 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 110 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 199 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 111 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 200 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 112 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -215,6 +127,20 @@ | ... | @@ -215,6 +127,20 @@ |
| 215 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 127 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 216 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 128 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 217 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 129 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 130 | +"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 131 | +"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 132 | +"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 133 | +"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 134 | +"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 135 | +"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 136 | +"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 137 | +"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 138 | +"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 139 | +"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 140 | +"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 141 | +"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 142 | +"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 143 | +"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 218 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 144 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 219 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 145 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 220 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 146 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -237,6 +163,37 @@ | ... | @@ -237,6 +163,37 @@ |
| 237 | "GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 163 | "GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 238 | "GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 164 | "GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 239 | "GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 165 | "GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 166 | +"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 167 | +"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 168 | +"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 169 | +"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 170 | +"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 171 | +"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 172 | +"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 173 | +"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 174 | +"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 175 | +"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 176 | +"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 177 | +"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 178 | +"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 179 | +"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 180 | +"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 181 | +"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 182 | +"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 183 | +"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 184 | +"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 185 | +"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 186 | +"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 187 | +"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 188 | +"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 189 | +"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 190 | +"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 191 | +"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 192 | +"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 193 | +"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 194 | +"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 195 | +"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 196 | +"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 240 | "GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | 197 | "GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" |
| 241 | "GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | 198 | "GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" |
| 242 | "GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | 199 | "GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -249,6 +206,61 @@ | ... | @@ -249,6 +206,61 @@ |
| 249 | "GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | 206 | "GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" |
| 250 | "GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | 207 | "GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" |
| 251 | "GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | 208 | "GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" |
| 209 | +"GSE74931","GSM1937963","∆fur Anaerobic [IP vs nput]","affinity purified anti-Fur antibody","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","","","","","","mid-log","","","" | ||
| 210 | +"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 211 | +"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 212 | +"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 213 | +"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 214 | +"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 215 | +"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 216 | +"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 217 | +"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 218 | +"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 219 | +"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 220 | +"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 221 | +"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 222 | +"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 223 | +"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 224 | +"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 225 | +"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 226 | +"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 227 | +"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 228 | +"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 229 | +"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 230 | +"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 231 | +"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 232 | +"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 233 | +"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 234 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 235 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 236 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 237 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 238 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 239 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 240 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 241 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 242 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 243 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 244 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 245 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 246 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 247 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 248 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 249 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 250 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 251 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 252 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 253 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 254 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 255 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 256 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 257 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 258 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 259 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 260 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 261 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 262 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 263 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 252 | "GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 264 | "GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 253 | "GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 265 | "GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 254 | "GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 266 | "GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| ... | @@ -257,27 +269,15 @@ | ... | @@ -257,27 +269,15 @@ |
| 257 | "GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 269 | "GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 258 | "GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 270 | "GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 259 | "GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 271 | "GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 260 | -"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 272 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 261 | -"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 273 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 262 | -"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 274 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" |
| 263 | -"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 275 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" |
| 264 | -"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 276 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" |
| 265 | -"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 277 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" |
| 266 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | 278 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 267 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | 279 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 268 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | 280 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 269 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | 281 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 270 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | 282 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 271 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | 283 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 272 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 273 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 274 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 275 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 276 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 277 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 278 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 279 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 280 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 281 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 282 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 283 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE74932","GSM1937964","Fur IP ChIP-Seq Aerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE74932","GSM1937965","Fur IP ChIP-Seq Aerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE74932","GSM1937966","Fur IP ChIP-Seq Aerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE74932","GSM1937967","Fur IP ChIP-Seq Anaerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 6 | +"GSE74932","GSM1937968","Fur IP ChIP-Seq Anaerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 7 | +"GSE74932","GSM1937969","Fur IP ChIP-Seq Anaerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 8 | +"GSE74932","GSM1937970","Fur IP ChIP-Seq Anaerobic, Iron Deficient A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 9 | +"GSE74932","GSM1937971","Fur IP ChIP-Seq Anaerobic, Iron Deficient B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 10 | +"GSE74932","GSM1937972","Input ChIP-Seq","none","Escherichia coli str. K-12 substr. MG1655","","","Combined input","U00096.2","","ChIP-Seq","Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 11 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 12 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 13 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 14 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 15 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 16 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 17 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE74931","GSM1937963","∆fur Anaerobic [IP vs nput]","affinity purified anti-Fur antibody","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","","","","","","mid-log","","","" | ||
| 18 | -"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 19 | -"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 20 | -"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 21 | -"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 22 | -"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 23 | -"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 24 | -"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 25 | -"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 26 | -"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 27 | -"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 28 | -"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 29 | -"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 30 | -"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 31 | -"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 32 | -"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 33 | -"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 34 | -"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 35 | -"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 36 | -"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 37 | -"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 38 | -"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 39 | -"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 40 | -"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 41 | -"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 42 | -"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 43 | -"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 44 | -"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 45 | -"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 46 | -"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 47 | -"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 48 | -"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 49 | -"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 50 | -"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 51 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 52 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 53 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 54 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 55 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 56 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 57 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 58 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 59 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 60 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 61 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 62 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 63 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 64 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 65 | -"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 66 | -"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 67 | -"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 68 | -"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 69 | -"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 70 | -"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 71 | -"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 72 | -"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 73 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 74 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 75 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 76 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 77 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 78 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 79 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 80 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 81 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 82 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 83 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 84 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 85 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 86 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 87 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 88 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 89 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 18 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 90 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 19 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 91 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 20 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -134,52 +63,24 @@ | ... | @@ -134,52 +63,24 @@ |
| 134 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" | 63 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" |
| 135 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" | 64 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" |
| 136 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" | 65 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" |
| 137 | -"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 66 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 138 | -"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 67 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 139 | -"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 68 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 140 | -"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 69 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 141 | -"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 70 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 142 | -"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 71 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 143 | -"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 72 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 144 | -"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 73 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 145 | -"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 74 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" |
| 146 | -"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 75 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" |
| 147 | -"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 76 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" |
| 148 | -"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 77 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" |
| 149 | -"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 78 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" |
| 150 | -"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 79 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" |
| 151 | -"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 80 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" |
| 152 | -"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 81 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" |
| 153 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 82 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" |
| 154 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 83 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" |
| 155 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 156 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 157 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 158 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 159 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 160 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 161 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 162 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 163 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 164 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 165 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 166 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 167 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 168 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 169 | -"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 170 | -"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 171 | -"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 172 | -"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 173 | -"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 174 | -"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 175 | -"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 176 | -"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 177 | -"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 178 | -"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 179 | -"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 180 | -"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 181 | -"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 182 | -"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 183 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 84 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 184 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 85 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 185 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 86 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -195,6 +96,26 @@ | ... | @@ -195,6 +96,26 @@ |
| 195 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 96 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 196 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 97 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 197 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 98 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 99 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 100 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 101 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 102 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 103 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 104 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 105 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 106 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 107 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 108 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 112 | +"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 113 | +"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 114 | +"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 115 | +"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 116 | +"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 117 | +"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 118 | +"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 198 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 119 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 199 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 120 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 200 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 121 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -215,6 +136,20 @@ | ... | @@ -215,6 +136,20 @@ |
| 215 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 136 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 216 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 137 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 217 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 138 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 139 | +"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 140 | +"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 141 | +"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 142 | +"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 143 | +"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 144 | +"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 145 | +"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 146 | +"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 147 | +"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 148 | +"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 149 | +"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 150 | +"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 151 | +"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 152 | +"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 218 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 153 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 219 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 154 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 220 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 155 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -237,15 +172,37 @@ | ... | @@ -237,15 +172,37 @@ |
| 237 | "GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 172 | "GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 238 | "GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 173 | "GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 239 | "GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 174 | "GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 240 | -"GSE74932","GSM1937964","Fur IP ChIP-Seq Aerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 175 | +"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 241 | -"GSE74932","GSM1937965","Fur IP ChIP-Seq Aerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 176 | +"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 242 | -"GSE74932","GSM1937966","Fur IP ChIP-Seq Aerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 177 | +"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 243 | -"GSE74932","GSM1937967","Fur IP ChIP-Seq Anaerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 178 | +"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 244 | -"GSE74932","GSM1937968","Fur IP ChIP-Seq Anaerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 179 | +"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 245 | -"GSE74932","GSM1937969","Fur IP ChIP-Seq Anaerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 180 | +"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 246 | -"GSE74932","GSM1937970","Fur IP ChIP-Seq Anaerobic, Iron Deficient A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 181 | +"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 247 | -"GSE74932","GSM1937971","Fur IP ChIP-Seq Anaerobic, Iron Deficient B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 182 | +"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 248 | -"GSE74932","GSM1937972","Input ChIP-Seq","none","Escherichia coli str. K-12 substr. MG1655","","","Combined input","U00096.2","","ChIP-Seq","Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 183 | +"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 184 | +"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 185 | +"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 186 | +"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 187 | +"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 188 | +"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 189 | +"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 190 | +"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 191 | +"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 192 | +"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 193 | +"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 194 | +"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 195 | +"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 196 | +"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 197 | +"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 198 | +"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 199 | +"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 200 | +"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 201 | +"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 202 | +"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 203 | +"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 204 | +"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 205 | +"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 249 | "GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | 206 | "GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" |
| 250 | "GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | 207 | "GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" |
| 251 | "GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | 208 | "GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -258,6 +215,61 @@ | ... | @@ -258,6 +215,61 @@ |
| 258 | "GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | 215 | "GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" |
| 259 | "GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | 216 | "GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" |
| 260 | "GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | 217 | "GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" |
| 218 | +"GSE74931","GSM1937963","∆fur Anaerobic [IP vs nput]","affinity purified anti-Fur antibody","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","","","","","","mid-log","","","" | ||
| 219 | +"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 220 | +"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 221 | +"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 222 | +"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 223 | +"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 224 | +"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 225 | +"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 226 | +"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 227 | +"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 228 | +"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 229 | +"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 230 | +"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 231 | +"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 232 | +"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 233 | +"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 234 | +"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 235 | +"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 236 | +"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 237 | +"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 238 | +"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 239 | +"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 240 | +"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 241 | +"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 242 | +"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 243 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 244 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 245 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 246 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 247 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 248 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 249 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 250 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 251 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 252 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 253 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 254 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 255 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 256 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 257 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 258 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 259 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 260 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 261 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 262 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 263 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 264 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 265 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 266 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 267 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 268 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 269 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 270 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 271 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 272 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 261 | "GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 273 | "GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 262 | "GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 274 | "GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 263 | "GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 275 | "GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| ... | @@ -266,27 +278,15 @@ | ... | @@ -266,27 +278,15 @@ |
| 266 | "GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 278 | "GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 267 | "GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 279 | "GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 268 | "GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 280 | "GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 269 | -"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 281 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 270 | -"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 282 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 271 | -"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 283 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" |
| 272 | -"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 284 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" |
| 273 | -"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 285 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" |
| 274 | -"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 286 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" |
| 275 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | 287 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 276 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | 288 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 277 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | 289 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 278 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | 290 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 279 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | 291 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 280 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | 292 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 281 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | ||
| 282 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | ||
| 283 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 284 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 285 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 286 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 287 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 288 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 289 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 290 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 291 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 292 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE74932","GSM1937964","Fur IP ChIP-Seq Aerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE74932","GSM1937965","Fur IP ChIP-Seq Aerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE74932","GSM1937966","Fur IP ChIP-Seq Aerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE74932","GSM1937967","Fur IP ChIP-Seq Anaerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 6 | +"GSE74932","GSM1937968","Fur IP ChIP-Seq Anaerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 7 | +"GSE74932","GSM1937969","Fur IP ChIP-Seq Anaerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 8 | +"GSE74932","GSM1937970","Fur IP ChIP-Seq Anaerobic, Iron Deficient A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 9 | +"GSE74932","GSM1937971","Fur IP ChIP-Seq Anaerobic, Iron Deficient B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 10 | +"GSE74932","GSM1937972","Input ChIP-Seq","none","Escherichia coli str. K-12 substr. MG1655","","","Combined input","U00096.2","","ChIP-Seq","Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 11 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 12 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 13 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 14 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 15 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 16 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 17 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE74931","GSM1937963","∆fur Anaerobic [IP vs nput]","affinity purified anti-Fur antibody","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","","","","","","mid-log","","","" | ||
| 18 | -"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 19 | -"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 20 | -"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 21 | -"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 22 | -"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 23 | -"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 24 | -"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 25 | -"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 26 | -"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 27 | -"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 28 | -"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 29 | -"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 30 | -"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 31 | -"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 32 | -"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 33 | -"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 34 | -"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 35 | -"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 36 | -"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 37 | -"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 38 | -"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 39 | -"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 40 | -"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 41 | -"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 42 | -"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 43 | -"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 44 | -"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 45 | -"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 46 | -"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 47 | -"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 48 | -"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 49 | -"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 50 | -"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 51 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 52 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 53 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 54 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 55 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 56 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 57 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 58 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 59 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 60 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 61 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 62 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 63 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 64 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 65 | -"GSE88979","GSM2356685","OmpR NaCl 1","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" | ||
| 66 | -"GSE88979","GSM2356686","OmpR NaCl 2","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" | ||
| 67 | -"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 68 | -"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 69 | -"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 70 | -"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 71 | -"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 72 | -"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 73 | -"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 74 | -"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 75 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 76 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 77 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 78 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 79 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 80 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 81 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 82 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 83 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 84 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 85 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 86 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 87 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 88 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 89 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 90 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 91 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 18 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 92 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 19 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 93 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 20 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -136,52 +63,24 @@ | ... | @@ -136,52 +63,24 @@ |
| 136 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" | 63 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" |
| 137 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" | 64 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" |
| 138 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" | 65 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" |
| 139 | -"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 66 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 140 | -"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 67 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 141 | -"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 68 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 142 | -"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 69 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 143 | -"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 70 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 144 | -"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 71 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 145 | -"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 72 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 146 | -"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 73 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 147 | -"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 74 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" |
| 148 | -"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 75 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" |
| 149 | -"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 76 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" |
| 150 | -"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 77 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" |
| 151 | -"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 78 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" |
| 152 | -"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 79 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" |
| 153 | -"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 80 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" |
| 154 | -"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 81 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" |
| 155 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 82 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" |
| 156 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 83 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" |
| 157 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 158 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 159 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 160 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 161 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 162 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 163 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 164 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 165 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 166 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 167 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 168 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 169 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 170 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 171 | -"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 172 | -"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 173 | -"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 174 | -"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 175 | -"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 176 | -"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 177 | -"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 178 | -"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 179 | -"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 180 | -"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 181 | -"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 182 | -"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 183 | -"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 184 | -"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 185 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 84 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 186 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 85 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 187 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 86 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -197,6 +96,26 @@ | ... | @@ -197,6 +96,26 @@ |
| 197 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 96 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 198 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 97 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 199 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 98 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 99 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 100 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 101 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 102 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 103 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 104 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 105 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 106 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 107 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 108 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 112 | +"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 113 | +"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 114 | +"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 115 | +"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 116 | +"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 117 | +"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 118 | +"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 200 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 119 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 201 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 120 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 202 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 121 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -217,6 +136,20 @@ | ... | @@ -217,6 +136,20 @@ |
| 217 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 136 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 218 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 137 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 219 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 138 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 139 | +"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 140 | +"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 141 | +"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 142 | +"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 143 | +"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 144 | +"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 145 | +"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 146 | +"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 147 | +"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 148 | +"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 149 | +"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 150 | +"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 151 | +"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 152 | +"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 220 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 153 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 221 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 154 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 222 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 155 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -239,15 +172,37 @@ | ... | @@ -239,15 +172,37 @@ |
| 239 | "GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 172 | "GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 240 | "GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 173 | "GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 241 | "GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 174 | "GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 242 | -"GSE74932","GSM1937964","Fur IP ChIP-Seq Aerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 175 | +"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 243 | -"GSE74932","GSM1937965","Fur IP ChIP-Seq Aerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 176 | +"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 244 | -"GSE74932","GSM1937966","Fur IP ChIP-Seq Aerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 177 | +"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 245 | -"GSE74932","GSM1937967","Fur IP ChIP-Seq Anaerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 178 | +"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 246 | -"GSE74932","GSM1937968","Fur IP ChIP-Seq Anaerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 179 | +"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 247 | -"GSE74932","GSM1937969","Fur IP ChIP-Seq Anaerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 180 | +"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 248 | -"GSE74932","GSM1937970","Fur IP ChIP-Seq Anaerobic, Iron Deficient A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 181 | +"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 249 | -"GSE74932","GSM1937971","Fur IP ChIP-Seq Anaerobic, Iron Deficient B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 182 | +"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 250 | -"GSE74932","GSM1937972","Input ChIP-Seq","none","Escherichia coli str. K-12 substr. MG1655","","","Combined input","U00096.2","","ChIP-Seq","Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 183 | +"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 184 | +"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 185 | +"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 186 | +"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 187 | +"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 188 | +"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 189 | +"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 190 | +"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 191 | +"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 192 | +"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 193 | +"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 194 | +"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 195 | +"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 196 | +"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 197 | +"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 198 | +"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 199 | +"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 200 | +"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 201 | +"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 202 | +"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 203 | +"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 204 | +"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 205 | +"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 251 | "GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | 206 | "GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" |
| 252 | "GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | 207 | "GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" |
| 253 | "GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | 208 | "GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -260,6 +215,61 @@ | ... | @@ -260,6 +215,61 @@ |
| 260 | "GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | 215 | "GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" |
| 261 | "GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | 216 | "GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" |
| 262 | "GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | 217 | "GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" |
| 218 | +"GSE74931","GSM1937963","∆fur Anaerobic [IP vs nput]","affinity purified anti-Fur antibody","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","","","","","","mid-log","","","" | ||
| 219 | +"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 220 | +"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 221 | +"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 222 | +"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 223 | +"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 224 | +"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 225 | +"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 226 | +"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 227 | +"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 228 | +"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 229 | +"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 230 | +"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 231 | +"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 232 | +"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 233 | +"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 234 | +"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 235 | +"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 236 | +"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 237 | +"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 238 | +"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 239 | +"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 240 | +"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 241 | +"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 242 | +"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 243 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 244 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 245 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 246 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 247 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 248 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 249 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 250 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 251 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 252 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 253 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 254 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 255 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 256 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 257 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 258 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 259 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 260 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 261 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 262 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 263 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 264 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 265 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 266 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 267 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 268 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 269 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 270 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 271 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 272 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 263 | "GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 273 | "GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 264 | "GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 274 | "GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 265 | "GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 275 | "GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| ... | @@ -268,27 +278,17 @@ | ... | @@ -268,27 +278,17 @@ |
| 268 | "GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 278 | "GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 269 | "GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 279 | "GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 270 | "GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 280 | "GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 271 | -"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 281 | +"GSE88979","GSM2356685","OmpR NaCl 1","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" |
| 272 | -"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 282 | +"GSE88979","GSM2356686","OmpR NaCl 2","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" |
| 273 | -"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 283 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 274 | -"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 284 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 275 | -"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 285 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" |
| 276 | -"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 286 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" |
| 277 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | 287 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" |
| 278 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | 288 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" |
| 279 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | 289 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 280 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | 290 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 281 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | 291 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 282 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | 292 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 283 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | 293 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 284 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | 294 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 285 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 286 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 287 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 288 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 289 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 290 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 291 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 292 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 293 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 294 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE74932","GSM1937964","Fur IP ChIP-Seq Aerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE74932","GSM1937965","Fur IP ChIP-Seq Aerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE74932","GSM1937966","Fur IP ChIP-Seq Aerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE74932","GSM1937967","Fur IP ChIP-Seq Anaerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 6 | +"GSE74932","GSM1937968","Fur IP ChIP-Seq Anaerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 7 | +"GSE74932","GSM1937969","Fur IP ChIP-Seq Anaerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 8 | +"GSE74932","GSM1937970","Fur IP ChIP-Seq Anaerobic, Iron Deficient A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 9 | +"GSE74932","GSM1937971","Fur IP ChIP-Seq Anaerobic, Iron Deficient B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 10 | +"GSE74932","GSM1937972","Input ChIP-Seq","none","Escherichia coli str. K-12 substr. MG1655","","","Combined input","U00096.2","","ChIP-Seq","Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 11 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 12 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 13 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 14 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 15 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 16 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 17 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE74931","GSM1937963","∆fur Anaerobic [IP vs nput]","affinity purified anti-Fur antibody","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","","","","","","mid-log","","","" | ||
| 18 | -"GSE88980","GSM2356687","WT NaCl 1","","Escherichia coli","K-12","MG1655","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 19 | -"GSE88980","GSM2356688","WT NaCl 2","","Escherichia coli","K-12","MG1655","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 20 | -"GSE88980","GSM2356689","ΔompR NaCl 1","","Escherichia coli","K-12","MG1655","ompR deletion mutant","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 21 | -"GSE88980","GSM2356690","ΔompR NaCl 2","","Escherichia coli","K-12","MG1655","ompR deletion mutant","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 23 | -"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 24 | -"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 25 | -"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 26 | -"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 27 | -"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 28 | -"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 29 | -"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 30 | -"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 31 | -"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 32 | -"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 33 | -"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 34 | -"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 35 | -"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 36 | -"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 37 | -"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 38 | -"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 39 | -"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 40 | -"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 41 | -"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 42 | -"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 43 | -"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 44 | -"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 45 | -"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 46 | -"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 47 | -"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 48 | -"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 49 | -"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 50 | -"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 51 | -"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 52 | -"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 53 | -"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 54 | -"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 55 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 56 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 57 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 58 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 59 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 60 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 61 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 62 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 63 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 64 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 65 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 66 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 67 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 68 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 69 | -"GSE88979","GSM2356685","OmpR NaCl 1","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" | ||
| 70 | -"GSE88979","GSM2356686","OmpR NaCl 2","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" | ||
| 71 | -"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 72 | -"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 73 | -"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 74 | -"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 75 | -"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 76 | -"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 77 | -"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 78 | -"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 79 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 80 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 81 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 82 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 83 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 84 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 85 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 86 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 87 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 88 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 89 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 90 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 91 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 92 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 93 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 94 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 95 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 18 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 96 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 19 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 97 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 20 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -140,52 +63,24 @@ | ... | @@ -140,52 +63,24 @@ |
| 140 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" | 63 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" |
| 141 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" | 64 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" |
| 142 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" | 65 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" |
| 143 | -"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 66 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 144 | -"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 67 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 145 | -"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 68 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 146 | -"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 69 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 147 | -"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 70 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 148 | -"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 71 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 149 | -"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 72 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 150 | -"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 73 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 151 | -"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 74 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" |
| 152 | -"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 75 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" |
| 153 | -"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 76 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" |
| 154 | -"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 77 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" |
| 155 | -"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 78 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" |
| 156 | -"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 79 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" |
| 157 | -"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 80 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" |
| 158 | -"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 81 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" |
| 159 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 82 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" |
| 160 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 83 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" |
| 161 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 162 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 163 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 164 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 165 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 166 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 167 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 168 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 169 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 170 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 171 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 172 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 173 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 174 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 175 | -"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 176 | -"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 177 | -"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 178 | -"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 179 | -"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 180 | -"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 181 | -"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 182 | -"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 183 | -"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 184 | -"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 185 | -"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 186 | -"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 187 | -"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 188 | -"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 189 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 84 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 190 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 85 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 191 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 86 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -201,6 +96,30 @@ | ... | @@ -201,6 +96,30 @@ |
| 201 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 96 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 202 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 97 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 203 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 98 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 99 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 100 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 101 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 102 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 103 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 104 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 105 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 106 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 107 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 108 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 112 | +"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 113 | +"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 114 | +"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 115 | +"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 116 | +"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 117 | +"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 118 | +"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 119 | +"GSE88980","GSM2356687","WT NaCl 1","","Escherichia coli","K-12","MG1655","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 120 | +"GSE88980","GSM2356688","WT NaCl 2","","Escherichia coli","K-12","MG1655","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 121 | +"GSE88980","GSM2356689","ΔompR NaCl 1","","Escherichia coli","K-12","MG1655","ompR deletion mutant","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 122 | +"GSE88980","GSM2356690","ΔompR NaCl 2","","Escherichia coli","K-12","MG1655","ompR deletion mutant","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 204 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 123 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 205 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 124 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 206 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 125 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -221,6 +140,20 @@ | ... | @@ -221,6 +140,20 @@ |
| 221 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 140 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 222 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 141 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 223 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 142 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 143 | +"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 144 | +"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 145 | +"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 146 | +"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 147 | +"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 148 | +"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 149 | +"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 150 | +"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 151 | +"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 152 | +"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 153 | +"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 154 | +"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 155 | +"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 156 | +"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 224 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 157 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 225 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 158 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 226 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 159 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -243,15 +176,37 @@ | ... | @@ -243,15 +176,37 @@ |
| 243 | "GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 176 | "GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 244 | "GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 177 | "GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 245 | "GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 178 | "GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 246 | -"GSE74932","GSM1937964","Fur IP ChIP-Seq Aerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 179 | +"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 247 | -"GSE74932","GSM1937965","Fur IP ChIP-Seq Aerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 180 | +"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 248 | -"GSE74932","GSM1937966","Fur IP ChIP-Seq Aerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 181 | +"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 249 | -"GSE74932","GSM1937967","Fur IP ChIP-Seq Anaerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 182 | +"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 250 | -"GSE74932","GSM1937968","Fur IP ChIP-Seq Anaerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 183 | +"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 251 | -"GSE74932","GSM1937969","Fur IP ChIP-Seq Anaerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 184 | +"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 252 | -"GSE74932","GSM1937970","Fur IP ChIP-Seq Anaerobic, Iron Deficient A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 185 | +"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 253 | -"GSE74932","GSM1937971","Fur IP ChIP-Seq Anaerobic, Iron Deficient B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 186 | +"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 254 | -"GSE74932","GSM1937972","Input ChIP-Seq","none","Escherichia coli str. K-12 substr. MG1655","","","Combined input","U00096.2","","ChIP-Seq","Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 187 | +"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 188 | +"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 189 | +"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 190 | +"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 191 | +"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 192 | +"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 193 | +"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 194 | +"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 195 | +"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 196 | +"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 197 | +"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 198 | +"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 199 | +"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 200 | +"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 201 | +"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 202 | +"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 203 | +"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 204 | +"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 205 | +"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 206 | +"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 207 | +"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 208 | +"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 209 | +"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 255 | "GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | 210 | "GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" |
| 256 | "GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | 211 | "GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" |
| 257 | "GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | 212 | "GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -264,6 +219,61 @@ | ... | @@ -264,6 +219,61 @@ |
| 264 | "GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | 219 | "GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" |
| 265 | "GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | 220 | "GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" |
| 266 | "GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | 221 | "GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" |
| 222 | +"GSE74931","GSM1937963","∆fur Anaerobic [IP vs nput]","affinity purified anti-Fur antibody","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","","","","","","mid-log","","","" | ||
| 223 | +"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 224 | +"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 225 | +"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 226 | +"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 227 | +"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 228 | +"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 229 | +"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 230 | +"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 231 | +"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 232 | +"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 233 | +"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 234 | +"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 235 | +"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 236 | +"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 237 | +"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 238 | +"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 239 | +"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 240 | +"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 241 | +"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 242 | +"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 243 | +"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 244 | +"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 245 | +"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 246 | +"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 247 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 248 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 249 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 250 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 251 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 252 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 253 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 254 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 255 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 256 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 257 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 258 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 259 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 260 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 261 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 262 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 263 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 264 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 265 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 266 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 267 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 268 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 269 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 270 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 271 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 272 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 273 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 274 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 275 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 276 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 267 | "GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 277 | "GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 268 | "GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 278 | "GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 269 | "GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 279 | "GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| ... | @@ -272,27 +282,17 @@ | ... | @@ -272,27 +282,17 @@ |
| 272 | "GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 282 | "GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 273 | "GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 283 | "GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 274 | "GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 284 | "GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 275 | -"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 285 | +"GSE88979","GSM2356685","OmpR NaCl 1","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" |
| 276 | -"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 286 | +"GSE88979","GSM2356686","OmpR NaCl 2","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" |
| 277 | -"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 287 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 278 | -"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 288 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 279 | -"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 289 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" |
| 280 | -"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 290 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" |
| 281 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | 291 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" |
| 282 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | 292 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" |
| 283 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | 293 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 284 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | 294 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 285 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | 295 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 286 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | 296 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 287 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | 297 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 288 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | 298 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 289 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 290 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 291 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 292 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 293 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 294 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 295 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 296 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 297 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 298 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
| 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" | 1 | "Serie","Sample","Name","Anti","Orgn","Strain","Substrain","Gtype","Gversion","Med","Technique","Supp","Air","Temp","pH","Press","OD","Phase","Rate","Vess","Agit" |
| 2 | -"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 2 | +"GSE74932","GSM1937964","Fur IP ChIP-Seq Aerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 3 | -"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 3 | +"GSE74932","GSM1937965","Fur IP ChIP-Seq Aerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 4 | -"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 4 | +"GSE74932","GSM1937966","Fur IP ChIP-Seq Aerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 5 | -"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 5 | +"GSE74932","GSM1937967","Fur IP ChIP-Seq Anaerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 6 | -"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 6 | +"GSE74932","GSM1937968","Fur IP ChIP-Seq Anaerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 7 | -"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 7 | +"GSE74932","GSM1937969","Fur IP ChIP-Seq Anaerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 8 | -"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 8 | +"GSE74932","GSM1937970","Fur IP ChIP-Seq Anaerobic, Iron Deficient A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 9 | -"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | 9 | +"GSE74932","GSM1937971","Fur IP ChIP-Seq Anaerobic, Iron Deficient B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 10 | -"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 10 | +"GSE74932","GSM1937972","Input ChIP-Seq","none","Escherichia coli str. K-12 substr. MG1655","","","Combined input","U00096.2","","ChIP-Seq","Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" |
| 11 | -"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 11 | +"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 12 | -"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 12 | +"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" |
| 13 | -"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | 13 | +"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" |
| 14 | +"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 14 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 15 | "GSE11230","GSM282644","NsrR_Flagtag_rep2","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 15 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 16 | "GSE11230","GSM282645","NsrR_Flagtag_rep3","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 16 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" | 17 | "GSE11230","GSM283059","NsrR_Flagtag_rep1","","Escherichia coli","","","NsrR, Flag-tag","","L broth","","glucose, nitrate","anaerobically","","","","","","","","" |
| 17 | -"GSE74931","GSM1937963","∆fur Anaerobic [IP vs nput]","affinity purified anti-Fur antibody","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","","","","","","mid-log","","","" | ||
| 18 | -"GSE88980","GSM2356687","WT NaCl 1","","Escherichia coli","K-12","MG1655","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 19 | -"GSE88980","GSM2356688","WT NaCl 2","","Escherichia coli","K-12","MG1655","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 20 | -"GSE88980","GSM2356689","ΔompR NaCl 1","","Escherichia coli","K-12","MG1655","ompR deletion mutant","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 21 | -"GSE88980","GSM2356690","ΔompR NaCl 2","","Escherichia coli","K-12","MG1655","ompR deletion mutant","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 22 | -"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 23 | -"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 24 | -"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 25 | -"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 26 | -"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 27 | -"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 28 | -"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 29 | -"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 30 | -"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 31 | -"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 32 | -"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 33 | -"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 34 | -"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 35 | -"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 36 | -"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 37 | -"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 38 | -"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 39 | -"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 40 | -"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 41 | -"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 42 | -"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 43 | -"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 44 | -"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 45 | -"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 46 | -"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 47 | -"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 48 | -"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 49 | -"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 50 | -"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 51 | -"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 52 | -"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 53 | -"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 54 | -"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 55 | -"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 56 | -"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 57 | -"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 58 | -"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 59 | -"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 60 | -"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 61 | -"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 62 | -"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 63 | -"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 64 | -"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 65 | -"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 66 | -"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 67 | -"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 68 | -"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 69 | -"GSE88979","GSM2356685","OmpR NaCl 1","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" | ||
| 70 | -"GSE88979","GSM2356686","OmpR NaCl 2","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" | ||
| 71 | -"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 72 | -"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 73 | -"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 74 | -"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 75 | -"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 76 | -"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 77 | -"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 78 | -"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 79 | -"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 80 | -"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 81 | -"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 82 | -"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 83 | -"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 84 | -"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 85 | -"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 86 | -"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 87 | -"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 88 | -"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 89 | -"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 90 | -"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 91 | -"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 92 | -"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 93 | -"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 94 | -"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 95 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" | 18 | "GSE41195","GSM1010199","","","","","","","","","","","","","","","","","","","" |
| 96 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" | 19 | "GSE41195","GSM1010200","","","","","","","","","","","","","","","","","","","" |
| 97 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" | 20 | "GSE41195","GSM1010201","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -140,52 +63,24 @@ | ... | @@ -140,52 +63,24 @@ |
| 140 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" | 63 | "GSE41195","GSM1143890","","","","","","","","","","","","","","","","","","","" |
| 141 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" | 64 | "GSE41195","GSM1143891","","","","","","","","","","","","","","","","","","","" |
| 142 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" | 65 | "GSE41195","GSM1143892","","","","","","","","","","","","","","","","","","","" |
| 143 | -"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 66 | +"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" |
| 144 | -"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 67 | +"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" |
| 145 | -"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 68 | +"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" |
| 146 | -"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 69 | +"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" |
| 147 | -"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 70 | +"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" |
| 148 | -"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 71 | +"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" |
| 149 | -"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 72 | +"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" |
| 150 | -"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 73 | +"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" |
| 151 | -"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 74 | +"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" |
| 152 | -"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 75 | +"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" |
| 153 | -"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 76 | +"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" |
| 154 | -"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 77 | +"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" |
| 155 | -"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 78 | +"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" |
| 156 | -"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 79 | +"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" |
| 157 | -"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 80 | +"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" |
| 158 | -"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | 81 | +"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" |
| 159 | -"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 82 | +"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" |
| 160 | -"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" | 83 | +"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" |
| 161 | -"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 162 | -"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" | ||
| 163 | -"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 164 | -"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" | ||
| 165 | -"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 166 | -"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 167 | -"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 168 | -"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 169 | -"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 170 | -"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" | ||
| 171 | -"GSE26589","GSM654485","PurR_Adenine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 172 | -"GSE26589","GSM654486","PurR_Adenine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","Adenine, 100ug/L adenine","","","","","","","","","" | ||
| 173 | -"GSE26589","GSM654487","PurR_glucose_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 174 | -"GSE26589","GSM654488","PurR_glucose_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","PurR-8myc","","M9 minimal medium","","glucose","","","","","","","","","" | ||
| 175 | -"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 176 | -"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 177 | -"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 178 | -"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 179 | -"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 180 | -"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 181 | -"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 182 | -"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 183 | -"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 184 | -"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 185 | -"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 186 | -"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 187 | -"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 188 | -"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 189 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 84 | "GSE19053","GSM471482","RNAP old rep1","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 190 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 85 | "GSE19053","GSM471483","RNAP old rep2","RNA polymerase subunit β","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| 191 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" | 86 | "GSE19053","GSM471484","SeqA old rep1","SeqA","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","LB","","0.2% glucose","","37 °C","","","OD600 of about 0.15","","","","" |
| ... | @@ -201,6 +96,41 @@ | ... | @@ -201,6 +96,41 @@ |
| 201 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 96 | "GSE19053","GSM471494","σ32 30°C rep2, σ32 ChIP DNA, control","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 202 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" | 97 | "GSE19053","GSM471495","σ32 30°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C (see heat sample), 30 °C","","","OD600 of about 0.3","","","flask","" |
| 203 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" | 98 | "GSE19053","GSM476145","σ32 43°C short RNase","σ32","Escherichia coli str. K-12 substr. MG1655","","","wildtype","","","","","","43 °C, 30 °C (see control sample)","","","OD600 of about 0.3","","","flask","" |
| 99 | +"GSE65642","GSM1602347","WT glucose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 100 | +"GSE65642","GSM1602348","WT glucose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 101 | +"GSE65642","GSM1602349","WT fructose 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 102 | +"GSE65642","GSM1602350","WT fructose 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 103 | +"GSE65642","GSM1602351","WT acetate 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 104 | +"GSE65642","GSM1602352","WT acetate 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 105 | +"GSE65642","GSM1602353","Δcra glucose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 106 | +"GSE65642","GSM1602354","Δcra glucose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","glucose, 0.2% glucose","aerobically","37°C","","","","mid-log phase","","","" | ||
| 107 | +"GSE65642","GSM1602355","Δcra fructose 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 108 | +"GSE65642","GSM1602356","Δcra fructose 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","fructose, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 109 | +"GSE65642","GSM1602357","Δcra acetate 1","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 110 | +"GSE65642","GSM1602358","Δcra acetate 2","","Escherichia coli, K-12 MG1655","","","delta_cra","NC_000913","M9 minimal media","RNA-Seq","acetate, 0.2%","aerobically","37°C","","","","mid-log phase","","","" | ||
| 111 | +"GSE93506","GSM2453482","CsiR_ChIPSeq","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 112 | +"GSE93506","GSM2453483","Nac_ChIPSeq","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 113 | +"GSE93506","GSM2453484","NtrC_ChIPSeq","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 114 | +"GSE93506","GSM2453485","OmpR_ChIPSeq","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 115 | +"GSE93506","GSM2453486","CsiR_RNASeq","","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","RNA-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 116 | +"GSE93506","GSM2453487","Nac_RNASeq","","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","RNA-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 117 | +"GSE93506","GSM2667742","WT_ChIPSeq_1","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 118 | +"GSE93506","GSM2667743","WT_ChIPSeq_2","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 119 | +"GSE93506","GSM2667744","pT7_ChIPSeq_1","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 120 | +"GSE93506","GSM2667745","pT7_ChIPSeq_2","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 121 | +"GSE93506","GSM2667746","WT_RNASeq","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","RNA-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | ||
| 122 | +"GSE65711","GSM1603386","WT PQ 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 123 | +"GSE65711","GSM1603387","WT PQ 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 124 | +"GSE65711","GSM1603388","ΔoxyR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 125 | +"GSE65711","GSM1603389","ΔoxyR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-oxyR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 126 | +"GSE65711","GSM1603390","ΔsoxR PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 127 | +"GSE65711","GSM1603391","ΔsoxR PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxR","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 128 | +"GSE65711","GSM1603392","ΔsoxS PQ 1","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 129 | +"GSE65711","GSM1603393","ΔsoxS PQ 2","","Escherichia coli, K-12 MG1655","","","delta-soxS","NC_000913","M9 minimal media","RNA-Seq","250 uM of paraquat, 20 min, 0.2% glucose","aerobically","37°C","","","","mid-log pahse","","","" | ||
| 130 | +"GSE88980","GSM2356687","WT NaCl 1","","Escherichia coli","K-12","MG1655","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 131 | +"GSE88980","GSM2356688","WT NaCl 2","","Escherichia coli","K-12","MG1655","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 132 | +"GSE88980","GSM2356689","ΔompR NaCl 1","","Escherichia coli","K-12","MG1655","ompR deletion mutant","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 133 | +"GSE88980","GSM2356690","ΔompR NaCl 2","","Escherichia coli","K-12","MG1655","ompR deletion mutant","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 204 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" | 134 | "GSE54901","GSM1326335","","","","","","","","","","","","","","","","","","","" |
| 205 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" | 135 | "GSE54901","GSM1326336","","","","","","","","","","","","","","","","","","","" |
| 206 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" | 136 | "GSE54901","GSM1326337","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -221,17 +151,20 @@ | ... | @@ -221,17 +151,20 @@ |
| 221 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" | 151 | "GSE54901","GSM1326352","Δfur with Fe 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2","aerobically","37°C","","","","mid-log phase","","","" |
| 222 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 152 | "GSE54901","GSM1326353","Δfur with DPD 1 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 223 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" | 153 | "GSE54901","GSM1326354","Δfur with DPD 2 (RNA-seq)","","Escherichia coli str. K-12 substr. MG1655","","","Δfur","NC_000913, ASM584v2","M9 minimal media","RNA-Seq","DPD, 0.2% glucose, 0.2mM of DPD","aerobically","37°C","","","","mid-log phase","","","" |
| 224 | -"GSE93506","GSM2453482","CsiR_ChIPSeq","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 154 | +"GSE74930","GSM1937949","Wild-type Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 225 | -"GSE93506","GSM2453483","Nac_ChIPSeq","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 155 | +"GSE74930","GSM1937950","Wild-type Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 226 | -"GSE93506","GSM2453484","NtrC_ChIPSeq","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 156 | +"GSE74930","GSM1937951","Wild-type Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 227 | -"GSE93506","GSM2453485","OmpR_ChIPSeq","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 157 | +"GSE74930","GSM1937952","Wild-type Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","wild type","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 228 | -"GSE93506","GSM2453486","CsiR_RNASeq","","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","RNA-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 158 | +"GSE74930","GSM1937953","∆fur Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 229 | -"GSE93506","GSM2453487","Nac_RNASeq","","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","RNA-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 159 | +"GSE74930","GSM1937954","∆fur Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 230 | -"GSE93506","GSM2667742","WT_ChIPSeq_1","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 160 | +"GSE74930","GSM1937955","∆fur Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 231 | -"GSE93506","GSM2667743","WT_ChIPSeq_2","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 161 | +"GSE74930","GSM1937956","∆fur Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 232 | -"GSE93506","GSM2667744","pT7_ChIPSeq_1","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 162 | +"GSE74930","GSM1937957","∆fur ∆ryhB Aerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 233 | -"GSE93506","GSM2667745","pT7_ChIPSeq_2","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","ChIP-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 163 | +"GSE74930","GSM1937958","∆fur ∆ryhB Aerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 234 | -"GSE93506","GSM2667746","WT_RNASeq","anti-FLAG mAb","Escherichia coli K-12, MG1655","","","","U00096.2","LB media","RNA-Seq","1mM IPTG, 2 hours","","37 °C","","","","","","","" | 164 | +"GSE74930","GSM1937959","∆fur ∆ryhB Anaerobic A","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" |
| 165 | +"GSE74930","GSM1937960","∆fur ∆ryhB Anaerobic B","","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur and the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 166 | +"GSE74930","GSM1937961","∆ryhB Aerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 167 | +"GSE74930","GSM1937962","∆ryhB Anaerobic","","Escherichia coli str. K-12 substr. MG1655","","","lacking the small RNA RyhB","","MOPS minimal glucose media","","10 µM FeSO4","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log phase","","","" | ||
| 235 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 168 | "GSE55199","GSM1331409","LB 0.4 B1 TEX neg L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 236 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 169 | "GSE55199","GSM1331410","LB 0.4 B1 TEX pos L1 GA","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 237 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 170 | "GSE55199","GSM1331411","LB 0.4 B2 TEX neg L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","LB","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| ... | @@ -254,15 +187,37 @@ | ... | @@ -254,15 +187,37 @@ |
| 254 | "GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 187 | "GSE55199","GSM1331428","M63 0.4 B2 TEX neg L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 255 | "GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 188 | "GSE55199","GSM1331429","M63 0.4 B2 TEX pos L1 HS1","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 256 | "GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" | 189 | "GSE55199","GSM1331430","M63 0.4 B2 TEX pos L1 HS2","","Escherichia coli str. K-12 substr. MG1655","","","wild type","NC_000913.2","M63, M63 minimal glucose","RNA-Seq","","","","","","OD600 of ~0.4","exponential","","","" |
| 257 | -"GSE74932","GSM1937964","Fur IP ChIP-Seq Aerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 190 | +"GSE41186","GSM1010199","FNR - Anaerobic - A","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 258 | -"GSE74932","GSM1937965","Fur IP ChIP-Seq Aerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 191 | +"GSE41186","GSM1010200","FNR - Anaerobic - B","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 259 | -"GSE74932","GSM1937966","Fur IP ChIP-Seq Aerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Aerobic, aerobically (70% N2, 25% O2, and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 192 | +"GSE41186","GSM1010201","FNR - Anaerobic - C","Pre-cleared FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 260 | -"GSE74932","GSM1937967","Fur IP ChIP-Seq Anaerobic A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 193 | +"GSE41186","GSM1010202","ß - Anaerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 261 | -"GSE74932","GSM1937968","Fur IP ChIP-Seq Anaerobic B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 194 | +"GSE41186","GSM1010203","ß - Anaerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 262 | -"GSE74932","GSM1937969","Fur IP ChIP-Seq Anaerobic C","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","Wild-type","U00096.2","MOPS minimal glucose media","ChIP-Seq","10 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 195 | +"GSE41186","GSM1010204","ß - Aerobic - A","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 263 | -"GSE74932","GSM1937970","Fur IP ChIP-Seq Anaerobic, Iron Deficient A","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 196 | +"GSE41186","GSM1010205","ß - Aerobic - B","RNA Polymerase ß monoclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 264 | -"GSE74932","GSM1937971","Fur IP ChIP-Seq Anaerobic, Iron Deficient B","anti-Fur polyclonal antibody","Escherichia coli str. K-12 substr. MG1655","","","{delta}tonB, {delta}feoA, {delta}zupT K12","U00096.2","MOPS minimal glucose media","ChIP-Seq","1 µM FeSO4, Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","anaerobically (95% N2 and 5% CO2)","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 197 | +"GSE41186","GSM1010206","HNS - Anaerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" |
| 265 | -"GSE74932","GSM1937972","Input ChIP-Seq","none","Escherichia coli str. K-12 substr. MG1655","","","Combined input","U00096.2","","ChIP-Seq","Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)","","","","","OD600 of ~0.3-0.35","mid-log, mid-log phase","","","" | 198 | +"GSE41186","GSM1010207","HNS - Aerobic A","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Aerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" |
| 199 | +"GSE41186","GSM1010208","IHF - Anaerobic A","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 200 | +"GSE41186","GSM1010209","∆fnr - Anaeroibc","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","∆fnr, PK4854","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 201 | +"GSE41186","GSM1010210","Ptac::fnr - A - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 202 | +"GSE41186","GSM1010211","Ptac::fnr - B - 4 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","4 µM IPTG, 4 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 203 | +"GSE41186","GSM1010212","Ptac::fnr - A - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 204 | +"GSE41186","GSM1010213","Ptac::fnr - B - 8 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","8 µM IPTG, 8 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 205 | +"GSE41186","GSM1010214","Ptac::fnr - A - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 206 | +"GSE41186","GSM1010215","Ptac::fnr - B - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 207 | +"GSE41186","GSM1010216","Ptac::fnr - C - 16 µM IPTG","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","PK8263","","","","16 µM IPTG, 16 µM IPTG and 300 µL Cm20","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 208 | +"GSE41186","GSM1010217","FNR - Anaerobic - Affinity Purified - A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 209 | +"GSE41186","GSM1010218","FNR - Anaerobic - Affinity Purified - B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655star","WT","","","","","Anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 210 | +"GSE41186","GSM1054383","FNR - ∆hns∆stpA A","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 211 | +"GSE41186","GSM1054384","FNR - ∆hns∆stpA B","Affinity Purified FNR antibody","Escherichia coli","K-12","MG1655","∆hns/∆stpA","","","","","anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 212 | +"GSE41186","GSM1143890","HNS - Anaerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 213 | +"GSE41186","GSM1143891","HNS - Aerobic B","Pre-cleared H-NS polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, aerobically (25% O2, 70% N2 and 5% CO2)","","","","OD600 of 0.35","mid-log phase","","","" | ||
| 214 | +"GSE41186","GSM1143892","IHF - Anaerobic B","Pre-cleared IHF polyclonal antibody","Escherichia coli","K-12","MG1655","WT","","","","","anaerobic, anaerobically (95% N2 and 5% CO2)","","","","OD600 of 0.3","mid-log phase","","","" | ||
| 215 | +"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 216 | +"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 217 | +"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 218 | +"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 219 | +"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 220 | +"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | ||
| 266 | "GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" | 221 | "GSE55366","GSM1334764","","","","","","","","","","","","","","","","","","","" |
| 267 | "GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" | 222 | "GSE55366","GSM1334765","","","","","","","","","","","","","","","","","","","" |
| 268 | "GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" | 223 | "GSE55366","GSM1334766","","","","","","","","","","","","","","","","","","","" |
| ... | @@ -275,6 +230,61 @@ | ... | @@ -275,6 +230,61 @@ |
| 275 | "GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" | 230 | "GSE55366","GSM1334773","","","","","","","","","","","","","","","","","","","" |
| 276 | "GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" | 231 | "GSE55366","GSM1334774","","","","","","","","","","","","","","","","","","","" |
| 277 | "GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" | 232 | "GSE55366","GSM1334775","","","","","","","","","","","","","","","","","","","" |
| 233 | +"GSE74931","GSM1937963","∆fur Anaerobic [IP vs nput]","affinity purified anti-Fur antibody","Escherichia coli str. K-12 substr. MG1655","","","lacking the transcription factor Fur","","MOPS minimal glucose media","","10 µM FeSO4","","","","","","mid-log","","","" | ||
| 234 | +"GSE4321","GSM98717","EC18n177 RpoH 0 min Time course 1, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 235 | +"GSE4321","GSM98718","EC18n178 RpoH 2.5 min Time course 1, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 236 | +"GSE4321","GSM98719","EC18n179 RpoH 5 min Time course 1, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 237 | +"GSE4321","GSM98720","EC18n180 RpoH 10 min Time course 1, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 238 | +"GSE4321","GSM98721","EC18n181 RpoH 20 min Time course 1, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 239 | +"GSE4321","GSM98722","EC18n167 RpoH 0 min Time course 2, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 240 | +"GSE4321","GSM98723","EC18n168 RpoH 2.5 min Time course 2, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 241 | +"GSE4321","GSM98724","EC18n169 RpoH 5 min Time course 2, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 242 | +"GSE4321","GSM98725","EC18n170 RpoH 10 min Time course 2, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 243 | +"GSE4321","GSM98726","EC18n171 RpoH 20 min Time course 2, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 244 | +"GSE4321","GSM98727","EC18n182 RpoH 0 min Time course 3, Wild type control (0 min), RpoH induced (0 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 245 | +"GSE4321","GSM98728","EC18n183 RpoH 2.5 min Time course 3, Wild type control (2.5 min), RpoH induced (2.5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 246 | +"GSE4321","GSM98729","EC18n184 RpoH 5 min Time course 3, Wild type control (5 min), RpoH induced (5 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 247 | +"GSE4321","GSM98730","EC18n185 RpoH 10 min Time course 3, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 248 | +"GSE4321","GSM98731","EC18n186 RpoH 20 min Time course 3, Wild type control (20 min), RpoH induced (20 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 249 | +"GSE4321","GSM98732","EC18n122 RpoH 10 min Time course 4, Wild type control (10 min), RpoH induced (10 min)","","Escherichia coli","","MG1655","PhtpG::lacZ delta lacX74/ptrc99A (control vector), PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)","","M9 minimal complete media","","1 mM IPTG","aerobically","30 degrees C","","","OD450 = 0.3","","","","gyratory water bath shaking at 240 rpm" | ||
| 250 | +"GSE66441","GSM1622463","ChIP-exo GadE pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 251 | +"GSE66441","GSM1622464","ChIP-exo GadE pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadE-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 252 | +"GSE66441","GSM1622465","ChIP-exo GadW pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 253 | +"GSE66441","GSM1622466","ChIP-exo GadW pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadW-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 254 | +"GSE66441","GSM1622467","ChIP-exo GadX pH5.5 1","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 255 | +"GSE66441","GSM1622468","ChIP-exo GadX pH5.5 2","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","gadX-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 256 | +"GSE66441","GSM1633277","ChIP-exo RpoS pH5.5 1","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 257 | +"GSE66441","GSM1633278","ChIP-exo RpoS pH5.5 2","anti-RpoS","Escherichia coli str. K-12 substr. MG1655","","","WT","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | ||
| 258 | +"GSE60546","GSM1482120","","","Escherichia coli","K-12","MG1655","","NC_000913","M9 medium","ChIP-Seq","2 g/L glucose, presence or absence of 1 g/L arginine","","37°C","","","OD600 ≈ 0.5","","","","" | ||
| 259 | +"GSE60546","GSM1482121","","","Escherichia coli","K-12","MG1655","","NC_000913","","ChIP-Seq","absence of 1 g/L arginine","","","","","","","","","" | ||
| 260 | +"GSE54899","GSM1326335","Fur with Fe 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 261 | +"GSE54899","GSM1326336","Fur with Fe 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 262 | +"GSE54899","GSM1326337","Fur with DPD 1 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 263 | +"GSE54899","GSM1326338","Fur with DPD 2 (ChIP-exo)","anti-myc","Escherichia coli str. K-12 substr. MG1655","","","fur-8myc","NC_000913, ASM584v2, ChIP-Seq","M9 minimal media","ChIP-exo","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 264 | +"GSE54899","GSM1326339","RpoB with Fe 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 265 | +"GSE54899","GSM1326340","RpoB with Fe 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe, 0.2% glucose, 0.1mM of FeCl2, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 266 | +"GSE54899","GSM1326341","RpoB with Fe and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 267 | +"GSE54899","GSM1326342","RpoB with Fe and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","Fe and rifampicin, 0.2% glucose, 0.1mM of FeCl2, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 268 | +"GSE54899","GSM1326343","RpoB with DPD 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 269 | +"GSE54899","GSM1326344","RpoB with DPD 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD, 0.2% glucose, 0.2mM of DPD, 2h","aerobically","37°C","","","","mid-log phase","","","" | ||
| 270 | +"GSE54899","GSM1326345","RpoB with DPD and rifampicin 1 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 271 | +"GSE54899","GSM1326346","RpoB with DPD and rifampicin 2 (ChIP-exo)","anti-RpoB","Escherichia coli str. K-12 substr. MG1655","","","WT","NC_000913, ASM584v2","M9 minimal media","ChIP-exo, ChIP-Seq","DPD and rifampicin, 0.2% glucose, 0.2mM of DPD, 2h, rifampicin dissolved in methanol, 150 mg/mL, 20 min","aerobically","37°C","","","","mid-log phase","","","" | ||
| 272 | +"GSE41190","GSM1010244","Ecoli_wild-type_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 273 | +"GSE41190","GSM1010245","Ecoli_wild-type_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","Wild-Type","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 274 | +"GSE41190","GSM1010246","Ecoli_dFNR_rep1_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 275 | +"GSE41190","GSM1010247","Ecoli_dFNR_rep2_anaerobic","","Escherichia coli str. K-12 substr. MG1655star","K-12","","dFNR (PK4854), dFNR","U00096.2","MOPS","RNA-Seq","0.2% glucose","anaerobic, anerobically (95% N2, 5% CO2)","37°C","","","O.D.600nm 0.3","mid-log phase","","","" | ||
| 276 | +"GSE26054","GSM639826","ArgR_Arginine_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 277 | +"GSE26054","GSM639827","ArgR_Arginine_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","1g/L arginine","","","","","","","","","" | ||
| 278 | +"GSE26054","GSM639828","ArgR_NH4Cl_1, Escherichia coli str. K-12 substr. MG1655","9E10 Myc tag","","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 279 | +"GSE26054","GSM639829","ArgR_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","ArgR-8myc","","glucose (2 g/L) minimal W2 medium","","2g/L glutamine","","","","","","","","","" | ||
| 280 | +"GSE26054","GSM639830","Lrp_Leu_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 281 | +"GSE26054","GSM639831","Lrp_Leu_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 282 | +"GSE26054","GSM639832","Lrp_Leu_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 283 | +"GSE26054","GSM639833","Lrp_NH4Cl_1","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 284 | +"GSE26054","GSM639834","Lrp_NH4Cl_2","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 285 | +"GSE26054","GSM639835","Lrp_NH4Cl_3","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","Lrp-8myc","","glucose (2 g/L) minimal M9 medium","","10 mM leucine","","","","","","","","","" | ||
| 286 | +"GSE26054","GSM639836","TrpR_Trp","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 287 | +"GSE26054","GSM639837","TrpR_glucose","9E10 Myc tag","Escherichia coli str. K-12 substr. MG1655","","","TrpR-8myc","","glucose (2 g/L) minimal M9 medium","","20 mg/L tryptophan","","","","","","","","","" | ||
| 278 | "GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 288 | "GSE66481","GSM1623160","WT pH5.5 1","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 279 | "GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 289 | "GSE66481","GSM1623161","WT pH5.5 2","","Escherichia coli, K-12 MG1655","","","WT","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 280 | "GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 290 | "GSE66481","GSM1623162","ΔgadE pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadE","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| ... | @@ -283,27 +293,17 @@ | ... | @@ -283,27 +293,17 @@ |
| 283 | "GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 293 | "GSE66481","GSM1623165","ΔgadW pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadW","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 284 | "GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 294 | "GSE66481","GSM1623166","ΔgadX pH5.5 1","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 285 | "GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" | 295 | "GSE66481","GSM1623167","ΔgadX pH5.5 2","","Escherichia coli, K-12 MG1655","","","delta-gadX","NC_000913","M9 minimal media","RNA-Seq","0.2% glucose","aerobically","37°C","pH 5.5","","OD600 = 0.3","mid-log phase","","","250 rpm" |
| 286 | -"GSE65710","GSM1603380","OxyR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 296 | +"GSE88979","GSM2356685","OmpR NaCl 1","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" |
| 287 | -"GSE65710","GSM1603381","OxyR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","oxyR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 297 | +"GSE88979","GSM2356686","OmpR NaCl 2","anti-myc","Escherichia coli","K-12","MG1655","ompR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose, 0.3 M of NaCl, 30 min","","","","","","mid-log pahse","","","" |
| 288 | -"GSE65710","GSM1603382","SoxR PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 298 | +"GSE65641","GSM1602341","Cra glucose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 289 | -"GSE65710","GSM1603383","SoxR PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxR-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 299 | +"GSE65641","GSM1602342","Cra glucose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% glucose","aerobically","37°C","","","","mid-log","","","" |
| 290 | -"GSE65710","GSM1603384","SoxS PQ 1","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 300 | +"GSE65641","GSM1602343","Cra fructose 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" |
| 291 | -"GSE65710","GSM1603385","SoxS PQ 2","anti-myc","Escherichia coli, K-12 MG1655","","","soxS-8myc","ASM584v2","M9 minimal media","ChIP-Seq","250 uM of paraquat, 20 min, 0.2% glucose","","","","","","mid-log phase","","","" | 301 | +"GSE65641","GSM1602344","Cra fructose 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% fructose","aerobically","37°C","","","","mid-log","","","" |
| 292 | -"GSE55365","GSM1334746","","","","","","","","","","","","","","","","","","","" | 302 | +"GSE65641","GSM1602345","Cra acetate 1","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" |
| 293 | -"GSE55365","GSM1334747","","","","","","","","","","","","","","","","","","","" | 303 | +"GSE65641","GSM1602346","Cra acetate 2","anti-myc","Escherichia coli, K-12 MG1655","","","cra-8myc-tagged","ASM584v2","M9 minimal media","ChIP-Seq","0.2% acetate","aerobically","37°C","","","","mid-log","","","" |
| 294 | -"GSE55365","GSM1334748","","","","","","","","","","","","","","","","","","","" | 304 | +"GSE65641","GSM2829281","RpoB WT 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 295 | -"GSE55365","GSM1334749","","","","","","","","","","","","","","","","","","","" | 305 | +"GSE65641","GSM2829282","RpoB WT 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","Wildtype","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 296 | -"GSE55365","GSM1334750","","","","","","","","","","","","","","","","","","","" | 306 | +"GSE65641","GSM2829283","RpoB ∆cra 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 297 | -"GSE55365","GSM1334751","","","","","","","","","","","","","","","","","","","" | 307 | +"GSE65641","GSM2829284","RpoB ∆cra 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","cra Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 298 | -"GSE55365","GSM1334752","","","","","","","","","","","","","","","","","","","" | 308 | +"GSE65641","GSM2829285","RpoB ∆crp 1","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 299 | -"GSE55365","GSM1334753","","","","","","","","","","","","","","","","","","","" | 309 | +"GSE65641","GSM2829286","RpoB ∆crp 2","anti-rpoB","Escherichia coli, K-12 MG1655","","","crp Knock-out strain","ASM584v2","","ChIP-Seq","acetate","","","","","","","","","" |
| 300 | -"GSE55365","GSM1334754","","","","","","","","","","","","","","","","","","","" | ||
| 301 | -"GSE55365","GSM1334755","","","","","","","","","","","","","","","","","","","" | ||
| 302 | -"GSE55365","GSM1334756","","","","","","","","","","","","","","","","","","","" | ||
| 303 | -"GSE55365","GSM1334757","","","","","","","","","","","","","","","","","","","" | ||
| 304 | -"GSE55365","GSM1334758","","","","","","","","","","","","","","","","","","","" | ||
| 305 | -"GSE55365","GSM1334759","","","","","","","","","","","","","","","","","","","" | ||
| 306 | -"GSE55365","GSM1334760","","","","","","","","","","","","","","","","","","","" | ||
| 307 | -"GSE55365","GSM1334761","","","","","","","","","","","","","","","","","","","" | ||
| 308 | -"GSE55365","GSM1334762","","","","","","","","","","","","","","","","","","","" | ||
| 309 | -"GSE55365","GSM1334763","","","","","","","","","","","","","","","","","","","" | ... | ... |
This diff could not be displayed because it is too large.
| ... | @@ -147,7 +147,7 @@ if __name__ == "__main__": | ... | @@ -147,7 +147,7 @@ if __name__ == "__main__": |
| 147 | # oFile.write("Serie: {}\tSample: {}\tTag: {}\tContent: {}\n".format(serie, sample, tag, content)) | 147 | # oFile.write("Serie: {}\tSample: {}\tTag: {}\tContent: {}\n".format(serie, sample, tag, content)) |
| 148 | saved_files+=1 | 148 | saved_files+=1 |
| 149 | 149 | ||
| 150 | - with open(os.path.join(options.outputPath, f.replace(".xml", ".complete-report.csv")), "w") as oFile: | 150 | + with open(os.path.join(options.outputPath, "GSE_family.complete-report.csv"), "w") as oFile: |
| 151 | for line in complete_report: | 151 | for line in complete_report: |
| 152 | oFile.write(line + "\n") | 152 | oFile.write(line + "\n") |
| 153 | 153 | ... | ... |
-
Please register or login to post a comment