SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	data_processing	All data was processed using Rockhopper Ver.2.03. Rockhopper is an [linebreak]automatic[linebreak] bacterial RNA-seq analysis tool; for additional information see: McClure, R., et al. (2013). [linebreak]Computational analysis of bacterial RNA-Seq data.[linebreak] Nucleic Acids Res 41(14): e140. The default general parameters were used with the [linebreak]verbose output[linebreak] tab ticked and the [linebreak]orientation of mate-pair reads[linebreak] changed to [linebreak]rf[linebreak]. PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	data_processing	Genome_build: NC_017644.1 (Escherichia coli NA114) PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	data_processing	Supplementary_files_format_and_content: *txt, *xml: These files contain the raw counts, normalized counts, RPKM values, expression values, P-values and Q-values. Each file contains the values for both samples at the indicated timepoint. PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	extract_protocol	Total RNA was extracted using a Thermo Scientific GeneJET RNA isolation kit. PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	extract_protocol	Extraction followed by DNase treatment with TURBO DNA-free kit from Ambion. rRNA depleted using an Illumina Ribo-zero rRNA removal kit. Followed by RNA-seq library prep using an Illumina TruSeq Stranded mRNA Library Prep Kit. PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	growth_protocol	The cultures were balanced and grown in CAMHB media at 37 degrees Celsius. PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	organism	Escherichia coli O25b:H4-ST131 PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	source_name	Clinical isolate, minus ciprofloxacin, 90min PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	treatment_protocol	E. coli ST131 UR40 was treated with ciprofloxacin (2µg/mL) and samples were taken at time points 0 min, 30 min and 90min. PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	library_strategy	RNA-Seq PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	characteristics	isolate: UR40 PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	characteristics	treatment: none PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	characteristics	time point: 90min PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	growth_protocol	The cultures were balanced and grown in CAMHB media at 37 degrees Celsius. PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	organism	Escherichia coli O25b:H4-ST131 PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	source_name	Clinical isolate, minus ciprofloxacin, 90min PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	treatment_protocol	E. coli ST131 UR40 was treated with ciprofloxacin (2µg/mL) and samples were taken at time points 0 min, 30 min and 90min. PGCGROWTHCONDITIONS
SRR4896365	GSE89507	GSM2374961	GPL22638	PMID_30013537	90min minus ciprofloxacin	Identification of ciprofloxacin helper drug targets by RNA-seq	GPL22638: Illumina MiSeq (Escherichia coli O25b:H4-ST131)	contact_name	Rasmus,Nielsen,Klitgaard PGCGROWTHCONDITIONS