SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	data_processing	The .align files have been processed using tagalign. Reads were aligned to the reference genome (Bowtie v.0.12.0) by the first 25 nt and extended to account for the linker. PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	extract_protocol	Clarified extracts were treated with microccocal nuclease (45 enzyme units per absorbance unit of lysate at 260 nm), purified through a sucrose gradient. Ribosome-protected footprints were size selected and converted into a cDNA library for sequencing. PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	extract_protocol	library strategy: Ribosome profiling PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	growth_protocol	An overnight culture was diluted to an OD600 of 0.02 in LB media supplemented with 100 µg/ml of carbenicillin, 40 µg/ml biotin, and 70 µM IPTG. The back diluted culture was grown at 37°C until reaching an OD600 of 0.45. PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	organism	Escherichia coli PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	source_name	Harvested by chloramphenicol pre-treatment and centrifugation; DSP treated ex vivo; Total footprints PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	treatment_protocol	The culture was incubated with 100 µg/ml of chloramphenicol for 2 min, and harvested by centrifugation. The pellet with washed and resuspended in 100 mM NH4Cl, 10 mM MgCl2, 20 mM Tris Cl, 0.4% Triton X100, 0.1% NP-40, and 100 µl/ml chloramphenicol, and flash frozen over liquid nitrogen. The frozen cell pellets were pulverized by mixer milling and thawed in 2.5 mM DSP. The crosslinking reaction was quenched with 100 mM Tris Cl 8.3. PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	library_strategy	RNA-Seq PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	characteristics	strain: MC4100 PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	characteristics	growth stage: mid-log phase PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	characteristics	genotype/variation: MC4100 ∆tig::kan pTig-TEV-Avi PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	growth_protocol	An overnight culture was diluted to an OD600 of 0.02 in LB media supplemented with 100 µg/ml of carbenicillin, 40 µg/ml biotin, and 70 µM IPTG. The back diluted culture was grown at 37°C until reaching an OD600 of 0.45. PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	organism	Escherichia coli PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	source_name	Harvested by chloramphenicol pre-treatment and centrifugation; DSP treated ex vivo; Total footprints PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	treatment_protocol	The culture was incubated with 100 µg/ml of chloramphenicol for 2 min, and harvested by centrifugation. The pellet with washed and resuspended in 100 mM NH4Cl, 10 mM MgCl2, 20 mM Tris Cl, 0.4% Triton X100, 0.1% NP-40, and 100 µl/ml chloramphenicol, and flash frozen over liquid nitrogen. The frozen cell pellets were pulverized by mixer milling and thawed in 2.5 mM DSP. The crosslinking reaction was quenched with 100 mM Tris Cl 8.3. PGCGROWTHCONDITIONS
SRR364366	GSE33671	GSM832609	GPL10328	PMID_22153074	DSP2_Total	Selective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo	GPL10328: Illumina Genome Analyzer II (Escherichia coli)	contact_name	Eugene,,Oh PGCGROWTHCONDITIONS