"Illumina Casava1.7 software used for basecalling."	"data_processing.1"
"Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to Escherichia coli ATCC8739 genome (GenBank CP000946.1) using Bowtie 2 (version 2.2.5)"	"data_processing.2"
"Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009."	"data_processing.3"
"Detailed parameters for reads mapping: bowtie2 -x ATCC8739 -1 X_1.fq -2 X_2.fq --no-mixed -p 2 -S X.sam"	"data_processing.4"
"Genome_build: ASM1938v1"	"data_processing.5"
"Supplementary_files_format_and_content: [.txt] tab-delimited text file includes RPKM values"	"data_processing.6"
"Total RNA was isolated by the Trizol-Phenol-Chloroform method. An additional clean-up including the on-column DNase I treatment was performed by using the RNeasy mini kit (Qiagen)."	"extract_protocol_ch1.1"
"RNA libraries were prepared for sequencing using standard Illumina protocols"	"extract_protocol_ch1.2"
"Single colonies were inoculated into 15x100 mm tubes containing 4 ml LB, and grown at 30ºC and 250 rpm overnight. 100 μl seed culture was inoculated into a 100 ml flask containing 10 ml LB medium, and grown at 30ºC and 250 rpm for 5 h."	"growth_protocol_ch1.1"
"Escherichia coli ATCC 8739"	"organism_ch1.1"
"G4H14 strain"	"source_name_ch1.1"
"G4H14"	"title.1"
"RNA-Seq"	"library_strategy.1"
"strain: G4H14"	"characteristics_ch1.1"
"Single colonies were inoculated into 15x100 mm tubes containing 4 ml LB, and grown at 30ºC and 250 rpm overnight. 100 μl seed culture was inoculated into a 100 ml flask containing 10 ml LB medium, and grown at 30ºC and 250 rpm for 5 h."	"growth_protocol_ch1.1"
"Escherichia coli ATCC 8739"	"organism_ch1.1"
"G4H14 strain"	"source_name_ch1.1"