Carlos-Francisco Méndez-Cruz / automatic-extraction-growth-conditions

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Estefani Gaytan Nunez
e07727d6 1 parent 176888a0

Replace unique_content_labels.tsv

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Showing 1 changed file with 93 additions and 93 deletions
1 - Agit Air Anti Gtype Gversion Med Name OD Orgn Phase Strain Substrain Supp Technique Temp Vess 1 +Agit Air Anti Gtype Gversion Med Name OD Orgn Phase Strain Substrain Supp Technique Temp Vess
2 -0 gyratory water bath shaking at 240 rpm aerobically (25% O2, 70% N2 and 5% CO2) 9E10 Myc tag fur-8myc NC_000913 LB Wild type control (10 min) OD600 of about 0.3 Escherichia coli mid-log phase K-12 MG1655star 100ug/L adenine RNA-Seq 30 °C (see control sample) flask 2 +gyratory water bath shaking at 240 rpm aerobically (25% O2, 70% N2 and 5% CO2) 9E10 Myc tag fur-8myc NC_000913 LB Wild type control (10 min) OD600 of about 0.3 Escherichia coli mid-log phase K-12 MG1655star 100ug/L adenine RNA-Seq 30 °C (see control sample) flask
3 -1 anerobically (95% N2, 5% CO2) Affinity Purified FNR antibody dFNR NC_000913 M9 minimal complete media NsrR_Flagtag_rep3 O.D.600nm 0.3 Escherichia coli str. K-12 substr. MG1655star mid-log phase K-12 MG1655 150 mg/mL ChIP-exo 37 °C 3 + anerobically (95% N2, 5% CO2) Affinity Purified FNR antibody dFNR NC_000913 M9 minimal complete media NsrR_Flagtag_rep3 O.D.600nm 0.3 Escherichia coli str. K-12 substr. MG1655star mid-log phase K-12 MG1655 150 mg/mL ChIP-exo 37 °C
4 -2 Aerobic SeqA ∆fnr U00096.2 glucose (2 g/L) minimal M9 medium NsrR_Flagtag_rep2 OD600 of 0.35 E. coli 16 µM IPTG and 300 µL Cm20 30 degrees C 4 + Aerobic SeqA ∆fnr U00096.2 glucose (2 g/L) minimal M9 medium NsrR_Flagtag_rep2 OD600 of 0.35 E. coli 16 µM IPTG and 300 µL Cm20 30 degrees C
5 -3 aerobically Pre-cleared IHF polyclonal antibody dFNR (PK4854) M9 minimal media NsrR_Flagtag_rep1 OD600 of 0.3 Escherichia coli Fe and rifampicin 30 °C 5 + aerobically Pre-cleared IHF polyclonal antibody dFNR (PK4854) M9 minimal media NsrR_Flagtag_rep1 OD600 of 0.3 Escherichia coli Fe and rifampicin 30 °C
6 -4 anaerobic RNA polymerase subunit β Fur-8-myc L broth EC18n178 RpoH 2.5 min Time course 1 OD600 of about 0.15 Escherichia coli str. K-12 substr. MG1655 2g/L glutamine 37°C 6 + anaerobic RNA polymerase subunit β Fur-8-myc L broth EC18n178 RpoH 2.5 min Time course 1 OD600 of about 0.15 Escherichia coli str. K-12 substr. MG1655 2g/L glutamine 37°C
7 -5 anaerobically (95% N2 and 5% CO2) Pre-cleared FNR antibody WT MOPS Ecoli_wild-type_rep2_anaerobic 4 µM IPTG 43 °C 7 + anaerobically (95% N2 and 5% CO2) Pre-cleared FNR antibody WT MOPS Ecoli_wild-type_rep2_anaerobic 4 µM IPTG 43 °C
8 -6 anaerobically RNA Polymerase ß monoclonal antibody Wild-Type glucose (2 g/L) minimal W2 medium HNS - Aerobic A 16 µM IPTG 43 °C (see heat sample) 8 + anaerobically RNA Polymerase ß monoclonal antibody Wild-Type glucose (2 g/L) minimal W2 medium HNS - Aerobic A 16 µM IPTG 43 °C (see heat sample)
9 -7 Anaerobic Pre-cleared H-NS polyclonal antibody TrpR-8myc M9 minimal media HNS - Aerobic B 8 µM IPTG and 300 µL Cm20 37°C 9 + Anaerobic Pre-cleared H-NS polyclonal antibody TrpR-8myc M9 minimal media HNS - Aerobic B 8 µM IPTG and 300 µL Cm20 37°C
10 -8 σ32 PhtpG::lacZ delta lacX74/ptrc99A (control vector) M9 minimal medium ∆fnr - Anaeroibc 1g/L arginine 10 + σ32 PhtpG::lacZ delta lacX74/ptrc99A (control vector) M9 minimal medium ∆fnr - Anaeroibc 1g/L arginine
11 -9 wildtype Ecoli_dFNR_rep1_anaerobic Fe 11 + wildtype Ecoli_dFNR_rep1_anaerobic Fe
12 -10 PK4854 Ptac::fnr - A - 8 µM IPTG nitrate 12 + PK4854 Ptac::fnr - A - 8 µM IPTG nitrate
13 -11 Flag-tag SeqA old deltaSeqA DPD and rifampicin 13 + Flag-tag SeqA old deltaSeqA DPD and rifampicin
14 -12 PK8263 SeqA old rep1 glucose 14 + PK8263 SeqA old rep1 glucose
15 -13 PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH) SeqA old rep2 20 mg/L tryptophan 15 + PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH) SeqA old rep2 20 mg/L tryptophan
16 -14 PurR-8myc σ32 ChIP DNA, heat 0.1mM of FeCl2 16 + PurR-8myc σ32 ChIP DNA, heat 0.1mM of FeCl2
17 -15 ΔseqA PurR_glucose_2 4 µM IPTG and 300 µL Cm20 17 + ΔseqA PurR_glucose_2 4 µM IPTG and 300 µL Cm20
18 -16 Fur-8-myc PurR_glucose_1 Adenine 18 + Fur-8-myc PurR_glucose_1 Adenine
19 -17 Δfur SeqA new rep2 0.2% glucose 19 + Δfur SeqA new rep2 0.2% glucose
20 -18 Lrp-8myc SeqA new rep1 rifampicin 20 + Lrp-8myc SeqA new rep1 rifampicin
21 -19 NsrR EC18n185 RpoH 10 min Time course 3 8 µM IPTG 21 + NsrR EC18n185 RpoH 10 min Time course 3 8 µM IPTG
22 -20 ∆hns/∆stpA σ32 43°C rep2 0.2mM of DPD 22 + ∆hns/∆stpA σ32 43°C rep2 0.2mM of DPD
23 -21 ArgR-8myc σ32 43°C rep1 DPD 23 + ArgR-8myc σ32 43°C rep1 DPD
24 -22 EC18n169 RpoH 5 min Time course 2 iron 24 + EC18n169 RpoH 5 min Time course 2 iron
25 -23 HNS - Anaerobic A 10 mM leucine 25 + HNS - Anaerobic A 10 mM leucine
26 -24 HNS - Anaerobic B 26 + HNS - Anaerobic B
27 -25 Wild type control (0 min) 27 + Wild type control (0 min)
28 -26 Ptac::fnr - B - 4 µM IPTG 28 + Ptac::fnr - B - 4 µM IPTG
29 -27 RpoH induced (2.5 min) 29 + RpoH induced (2.5 min)
30 -28 IHF - Anaerobic B 30 + IHF - Anaerobic B
31 -29 IHF - Anaerobic A 31 + IHF - Anaerobic A
32 -30 RNAP old rep2 32 + RNAP old rep2
33 -31 RpoH induced (0 min) 33 + RpoH induced (0 min)
34 -32 RNAP old rep1 34 + RNAP old rep1
35 -33 EC18n122 RpoH 10 min Time course 4 35 + EC18n122 RpoH 10 min Time course 4
36 -34 Crosslink 36 + Crosslink
37 -35 RpoH induced (20 min) 37 + RpoH induced (20 min)
38 -36 Wild type control (20 min) 38 + Wild type control (20 min)
39 -37 EC18n182 RpoH 0 min Time course 3 39 + EC18n182 RpoH 0 min Time course 3
40 -38 Lrp_Leu_1 40 + Lrp_Leu_1
41 -39 Lrp_Leu_3 41 + Lrp_Leu_3
42 -40 Lrp_Leu_2 42 + Lrp_Leu_2
43 -41 EC18n171 RpoH 20 min Time course 2 43 + EC18n171 RpoH 20 min Time course 2
44 -42 Ptac::fnr - A - 16 µM IPTG 44 + Ptac::fnr - A - 16 µM IPTG
45 -43 σ32 30°C short RNase 45 + σ32 30°C short RNase
46 -44 EC18n181 RpoH 20 min Time course 1 46 + EC18n181 RpoH 20 min Time course 1
47 -45 PurR_Adenine_2 47 + PurR_Adenine_2
48 -46 PurR_Adenine_1 48 + PurR_Adenine_1
49 -47 EC18n168 RpoH 2.5 min Time course 2 49 + EC18n168 RpoH 2.5 min Time course 2
50 -48 Lrp_NH4Cl_2 50 + Lrp_NH4Cl_2
51 -49 Lrp_NH4Cl_3 51 + Lrp_NH4Cl_3
52 -50 Lrp_NH4Cl_1 52 + Lrp_NH4Cl_1
53 -51 σ32 30°C rep1 53 + σ32 30°C rep1
54 -52 σ32 30°C rep2 54 + σ32 30°C rep2
55 -53 EC18n184 RpoH 5 min Time course 3 55 + EC18n184 RpoH 5 min Time course 3
56 -54 FNR - Anaerobic - A 56 + FNR - Anaerobic - A
57 -55 FNR - Anaerobic - C 57 + FNR - Anaerobic - C
58 -56 FNR - Anaerobic - B 58 + FNR - Anaerobic - B
59 -57 Ptac::fnr - A - 4 µM IPTG 59 + Ptac::fnr - A - 4 µM IPTG
60 -58 Ecoli_wild-type_rep1_anaerobic 60 + Ecoli_wild-type_rep1_anaerobic
61 -59 EC18n167 RpoH 0 min Time course 2 61 + EC18n167 RpoH 0 min Time course 2
62 -60 FNR - ∆hns∆stpA A 62 + FNR - ∆hns∆stpA A
63 -61 FNR - ∆hns∆stpA B 63 + FNR - ∆hns∆stpA B
64 -62 Ptac::fnr - B - 8 µM IPTG 64 + Ptac::fnr - B - 8 µM IPTG
65 -63 ArgR_Arginine_2 65 + ArgR_Arginine_2
66 -64 TrpR_glucose 66 + TrpR_glucose
67 -65 ArgR_Arginine_1 67 + ArgR_Arginine_1
68 -66 Escherichia coli str. K-12 substr. MG1655 68 + Escherichia coli str. K-12 substr. MG1655
69 -67 ArgR_NH4Cl_1 69 + ArgR_NH4Cl_1
70 -68 ArgR_NH4Cl_2 70 + ArgR_NH4Cl_2
71 -69 ß - Anaerobic - A 71 + ß - Anaerobic - A
72 -70 ß - Anaerobic - B 72 + ß - Anaerobic - B
73 -71 σ32 ChIP DNA, control 73 + σ32 ChIP DNA, control
74 -72 SeqA new deltaSeqA 74 + SeqA new deltaSeqA
75 -73 EC18n177 RpoH 0 min Time course 1 75 + EC18n177 RpoH 0 min Time course 1
76 -74 TrpR_Trp 76 + TrpR_Trp
77 -75 Ptac::fnr - B - 16 µM IPTG 77 + Ptac::fnr - B - 16 µM IPTG
78 -76 ß - Aerobic - A 78 + ß - Aerobic - A
79 -77 ß - Aerobic - B 79 + ß - Aerobic - B
80 -78 σ32 43°C short RNase 80 + σ32 43°C short RNase
81 -79 RpoH induced (5 min) 81 + RpoH induced (5 min)
82 -80 FNR - Anaerobic - Affinity Purified - B 82 + FNR - Anaerobic - Affinity Purified - B
83 -81 EC18n186 RpoH 20 min Time course 3 83 + EC18n186 RpoH 20 min Time course 3
84 -82 FNR - Anaerobic - Affinity Purified - A 84 + FNR - Anaerobic - Affinity Purified - A
85 -83 Ptac::fnr - C - 16 µM IPTG 85 + Ptac::fnr - C - 16 µM IPTG
86 -84 EC18n170 RpoH 10 min Time course 2 86 + EC18n170 RpoH 10 min Time course 2
87 -85 RpoH induced (10 min) 87 + RpoH induced (10 min)
88 -86 EC18n183 RpoH 2.5 min Time course 3 88 + EC18n183 RpoH 2.5 min Time course 3
89 -87 EC18n180 RpoH 10 min Time course 1 89 + EC18n180 RpoH 10 min Time course 1
90 -88 EC18n179 RpoH 5 min Time course 1 90 + EC18n179 RpoH 5 min Time course 1
91 -89 Wild type control (5 min) 91 + Wild type control (5 min)
92 -90 Wild type control (2.5 min) 92 + Wild type control (2.5 min)
93 -91 Ecoli_dFNR_rep2_anaerobic 93 + Ecoli_dFNR_rep2_anaerobic
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