"For RNA-Seq analysis, the fastq file produced from the machine was demultiplexed into a separate file for each sample."	"data_processing.1"
"Index sequences accompanying with reads were compared with pre-designed barcodes, allowing two base mismatches at most."	"data_processing.2"
"The low-quality of raw reads were trimmed using Trimmomatic (v0.30) with default settings."	"data_processing.3"
"Trimmed reads were aligned on most recent reference genome of Escherichia coli (GenBank U00096.3) by using TopHat (v2.0.10) coupled with bowtie (v1.0.0)."	"data_processing.4"
"HTSeq is used to generate expression count for each gene."	"data_processing.5"
"Genome_build: RefSeq NC_000913.3"	"data_processing.6"
"Supplementary_files_format_and_content: htcount : expression count for each gene and its name."	"data_processing.7"
"Bacteria were harvested with 0.5 Vol of 5% phenol in ethanol and frozen at -80C. Total RNA was extracted from frozen cultures using RNeasy kit (Qiagen)."	"extract_protocol_ch1.1"
"Library constructed using KAPA Kit."	"extract_protocol_ch1.2"
"For the first batch (from WT_LB_1 to lacA_M9_2), fresh colonies of E. coli cells were taken and inoculated in 1 ml LB and grown for 8 h at 37°C. 20 µL of grown culture was taken and transferred to 3 ml LB/M9 medium supplemented with 0.3% glucose and grown for 12 h at 37°C. At 12 h, cells were harvested for the RNA-seq. For the second batch (from WT_1 to aspC_3), a 1:100 dilution from an overnight culture in M9 0.4% glucose was done. When the late stationary phase was reached, the samples were harvested."	"growth_protocol_ch1.1"
"Escherichia coli BW25113"	"organism_ch1.1"
"Whole cell, lacA KO, M9 and 0.3% glucose"	"source_name_ch1.1"
"lacA KO M9 rep1"	"title.1"
"RNA-Seq"	"library_strategy.1"
"strain/background: BW25113"	"characteristics_ch1.1"
"genotype/variation: lacA knockout"	"characteristics_ch1.2"
"media: M9"	"characteristics_ch1.3"
"treatment: 0.3% glucose"	"characteristics_ch1.4"
"For the first batch (from WT_LB_1 to lacA_M9_2), fresh colonies of E. coli cells were taken and inoculated in 1 ml LB and grown for 8 h at 37°C. 20 µL of grown culture was taken and transferred to 3 ml LB/M9 medium supplemented with 0.3% glucose and grown for 12 h at 37°C. At 12 h, cells were harvested for the RNA-seq. For the second batch (from WT_1 to aspC_3), a 1:100 dilution from an overnight culture in M9 0.4% glucose was done. When the late stationary phase was reached, the samples were harvested."	"growth_protocol_ch1.1"
"Escherichia coli BW25113"	"organism_ch1.1"
"Whole cell, lacA KO, M9 and 0.3% glucose"	"source_name_ch1.1"