"MG1655 strain of E. coli K-12"	"characteristics_ch1.1"
"MG1655 strain of E. coli K-12"	"characteristics_ch2.1"
"Spot intensities and locations were determined using TIGR Spotfinder, Version 3.1.1. All subsequent analyses were performed using the ma-anova package in the open-source statistical software package, R (www.r-project.org), Version 2.4.1. The data were normalized using the regional lowess method."	"data_processing.1"
"RNA was extracted and purified using a Masterpure RNA purification kit (Epicentre Technologies)."	"extract_protocol_ch1.1"
"RNA was extracted and purified using a Masterpure RNA purification kit (Epicentre Technologies)."	"extract_protocol_ch2.1"
"E. coli was grown in M9 medium supplemented with 0.4% glucose. The cultures were grown on a rotary shaker (200 rpm) at 37 °C until the contents of the flask reached an OD600 of 0.3 (mid-log phase of growth). Each culture was divided into 25 mL aliquots, transferred to four 50 mL conical tubes, and centrifuged at 2540 x g for 12 minutes. The supernatant was decanted, and the cells were resuspended in 25 mL of M9 medium at pH 5. The cultures were incubated at 25 °C for 15 minutes with manual rotations of the flasks once per minute to resuspend the cells."	"growth_protocol_ch1.1"
"E. coli was grown in M9 medium supplemented with 0.4% glucose. The cultures were grown on a rotary shaker (200 rpm) at 37 °C until the contents of the flask reached an OD600 of 0.3 (mid-log phase of growth). Each culture was divided into 25 mL aliquots, transferred to 50 mL conical tubes, and centrifuged at 2540 x g for 12 minutes. The supernatant was decanted, and the cells were resuspended in 25 mL of M9 medium at pH 7. The cultures were incubated at 25 °C for 15 minutes with manual rotations of the flasks once per minute to resuspend the cells."	"growth_protocol_ch2.1"
"Escherichia coli str. K-12 substr. MG1655"	"organism_ch1.1"
"Escherichia coli str. K-12 substr. MG1655"	"organism_ch2.1"
"E. coli, 15 minutes, no cadmium, pH 5"	"source_name_ch1.1"
"E. coli, 15 minutes, no cadmium, pH 7"	"source_name_ch2.1"
"E. coli 15 minute pH only dye swap treatment"	"title.1"
"MG1655 strain of E. coli K-12"	"characteristics_ch1.1"
"MG1655 strain of E. coli K-12"	"characteristics_ch2.1"
"E. coli was grown in M9 medium supplemented with 0.4% glucose. The cultures were grown on a rotary shaker (200 rpm) at 37 °C until the contents of the flask reached an OD600 of 0.3 (mid-log phase of growth). Each culture was divided into 25 mL aliquots, transferred to four 50 mL conical tubes, and centrifuged at 2540 x g for 12 minutes. The supernatant was decanted, and the cells were resuspended in 25 mL of M9 medium at pH 5. The cultures were incubated at 25 °C for 15 minutes with manual rotations of the flasks once per minute to resuspend the cells."	"growth_protocol_ch1.1"
"E. coli was grown in M9 medium supplemented with 0.4% glucose. The cultures were grown on a rotary shaker (200 rpm) at 37 °C until the contents of the flask reached an OD600 of 0.3 (mid-log phase of growth). Each culture was divided into 25 mL aliquots, transferred to 50 mL conical tubes, and centrifuged at 2540 x g for 12 minutes. The supernatant was decanted, and the cells were resuspended in 25 mL of M9 medium at pH 7. The cultures were incubated at 25 °C for 15 minutes with manual rotations of the flasks once per minute to resuspend the cells."	"growth_protocol_ch2.1"
"Escherichia coli str. K-12 substr. MG1655"	"organism_ch1.1"
"Escherichia coli str. K-12 substr. MG1655"	"organism_ch2.1"
"E. coli, 15 minutes, no cadmium, pH 5"	"source_name_ch1.1"
"E. coli, 15 minutes, no cadmium, pH 7"	"source_name_ch2.1"