"The program Rockhopper (described in Mc Clure, et al. Nucleic Acids Research. 2013, 41(14)) was used for alignment, normalization, and quantification. Genome_builg: K-12 subst. MG1655 genome (NC_000913.3)/ASM584v1"	"data_processing.1"
"Genome_build: K-12 subst. MG1655 genome (NC_000913.3)/ASM584v1"	"data_processing.2"
"Supplementary_files_format_and_content: Excel formatted matrix table containing transcript coordinates, normalized abundance estimates across the biological replicates and fold-changes in gene expression between cells expressing Vector and DicF."	"data_processing.3"
"Supplementary_files_format_and_content: Processed-VectorvsDicF-transcripts.xlsx: Excel file with transcription start and stop, expression values of all genes in the E. coli genome in vector and DicF"	"data_processing.4"
"Supplementary_files_format_and_content: Processed-VectorvsDicF-transcripts.txt: .txt raw output file from Rockhopper"	"data_processing.5"
"Supplementary_files_format_and_content: Processed-VectorvsDicF-operon.txt: .txt tab delimited file with operons expressed differently between vector and DicF"	"data_processing.6"
"Hot phenol RNA extraction as described in Aiba, Adhya and Crombrugge. J. Bio Chem. 1981, 256: p11905-11910"	"extract_protocol_ch1.1"
"Ribosomal RNA was removed from 1 μg of total RNA using Ribozero rRNA Removal Meta-Bacteria Kit (Epicentre Biotechnologies) and the mRNA-enriched fraction was converted to indexed RNA-seq libraries with the ScriptSeq™ v2 RNA-Seq Library Preparation Kit (Epicentre Biotechnologies)."	"extract_protocol_ch1.2"
"E. coli cells were grown in Luria Broth supplemented with 100ug/ml ampicillin to retain the plasmids."	"growth_protocol_ch1.1"
"Escherichia coli str. K-12 substr. MG1655"	"organism_ch1.1"
"Total RNA from bacterial culture"	"source_name_ch1.1"
"DicF rep2"	"title.1"
"E. coli cells were grown until mid-exponential phase and treated with 0.5mM isopropyl-β-d-thiogalactopyranoside (IPTG) to induce expression of the empty vector or the small RNA."	"treatment_protocol_ch1.1"
"RNA-Seq"	"library_strategy.1"
"genotype: delta dicF, lacIq"	"characteristics_ch1.1"
"protocol: small RNA DicF"	"characteristics_ch1.2"
"E. coli cells were grown in Luria Broth supplemented with 100ug/ml ampicillin to retain the plasmids."	"growth_protocol_ch1.1"
"Escherichia coli str. K-12 substr. MG1655"	"organism_ch1.1"
"Total RNA from bacterial culture"	"source_name_ch1.1"
"E. coli cells were grown until mid-exponential phase and treated with 0.5mM isopropyl-β-d-thiogalactopyranoside (IPTG) to induce expression of the empty vector or the small RNA."	"treatment_protocol_ch1.1"