"strain: MG1655"	"characteristics_ch1.1"
"plasmid: pControl"	"characteristics_ch1.2"
"time point: 4.5 hrs after induction"	"characteristics_ch1.3"
"growth phase: exponential growth phase"	"characteristics_ch1.4"
"strain: MG1655"	"characteristics_ch2.1"
"plasmid: pLPLσ"	"characteristics_ch2.2"
"time point: 4.5 hrs after induction"	"characteristics_ch2.3"
"growth phase: exponential growth phase"	"characteristics_ch2.4"
"Background subtractions and normalization of extracted data were performed through R using the Bioconductor package as described (Yang, Y.H. et al. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation, Nucleic Acid Res 30, e15, 2002; Smyth, G.K. in Bioinformatics and Computational Biology Solutions using R and Bioconductor. 397-420, Springer, New York, 2005)."	"data_processing.1"
"Total RNA was extracted using the RNeasy Mini kit (Qiagen, Hilden, Germany) according to the manufactures recommendations."	"extract_protocol_ch1.1"
"Total RNA was extracted using the RNeasy Mini kit (Qiagen, Hilden, Germany) according to the manufactures recommendations."	"extract_protocol_ch2.1"
"Cultures of both strains were started with a 2% overnight inoculum in LB media containing 35ug/ml chloramphenicol."	"growth_protocol_ch1.1"
"Cultures of both strains were started with a 2% overnight inoculum in LB media containing 35ug/ml chloramphenicol."	"growth_protocol_ch2.1"
"Escherichia coli"	"organism_ch1.1"
"Escherichia coli"	"organism_ch2.1"
"pControl_exponential growth phase_1 ml cell pellet"	"source_name_ch1.1"
"pLPLσ_exponential growth phase_1 ml cell pellet"	"source_name_ch2.1"
"Replicate 1 - timepoint 1 (4.5h)"	"title.1"
"The optical density was measured every 30 min and expression of the heterologous sigma factor was induced with 1mM IPTG at an optical density of 0.1. Samples for RNA extractions (1ml) were taken after 4.5, 6 and 9 hours after induction. Cell pellets were stored at -80°C until total RNA extraction was performed."	"treatment_protocol_ch1.1"
"The optical density was measured every 30 min and expression of the heterologous sigma factor was induced with 1mM IPTG at an optical density of 0.1. Samples for RNA extractions (1ml) were taken after 4.5, 6 and 9 hours after induction. Cell pellets were stored at -80°C until total RNA extraction was performed."	"treatment_protocol_ch2.1"
"strain: MG1655"	"characteristics_ch1.1"
"plasmid: pControl"	"characteristics_ch1.2"
"time point: 4.5 hrs after induction"	"characteristics_ch1.3"
"growth phase: exponential growth phase"	"characteristics_ch1.4"
"strain: MG1655"	"characteristics_ch2.1"
"plasmid: pLPLσ"	"characteristics_ch2.2"
"time point: 4.5 hrs after induction"	"characteristics_ch2.3"
"growth phase: exponential growth phase"	"characteristics_ch2.4"
"Cultures of both strains were started with a 2% overnight inoculum in LB media containing 35ug/ml chloramphenicol."	"growth_protocol_ch1.1"
"Cultures of both strains were started with a 2% overnight inoculum in LB media containing 35ug/ml chloramphenicol."	"growth_protocol_ch2.1"
"Escherichia coli"	"organism_ch1.1"
"Escherichia coli"	"organism_ch2.1"
"pControl_exponential growth phase_1 ml cell pellet"	"source_name_ch1.1"
"pLPLσ_exponential growth phase_1 ml cell pellet"	"source_name_ch2.1"
"The optical density was measured every 30 min and expression of the heterologous sigma factor was induced with 1mM IPTG at an optical density of 0.1. Samples for RNA extractions (1ml) were taken after 4.5, 6 and 9 hours after induction. Cell pellets were stored at -80°C until total RNA extraction was performed."	"treatment_protocol_ch1.1"
"The optical density was measured every 30 min and expression of the heterologous sigma factor was induced with 1mM IPTG at an optical density of 0.1. Samples for RNA extractions (1ml) were taken after 4.5, 6 and 9 hours after induction. Cell pellets were stored at -80°C until total RNA extraction was performed."	"treatment_protocol_ch2.1"