GEO DataSets

Examination of K-12 MG1655 deletion strains grown in either aerobic or anaerobic conditions. Strains deleted for transcriptional regulators in oxygen response. Results used to validate a computational model of transcriptional and metabolic networks.

Organism:

Escherichia coli; Escherichia coli K-12

Type:

Expression profiling by array, count, 7 genotype/variation, 2 growth protocol, 2 strain sets

Platform:

GPL199

Series:

GSE1121

43 Samples

Download data: CEL

(Submitter supplied) The purpose of this study is to investigate the changes of global gene expression in E. coli during an oxygen shift. All cultures were grown under aerobic or anaerobic conditions in M9 minimal media supplemented with glucose. Samples were RNA-stabilized using Qiagen RNAProtect Bacterial Reagent, and total RNA was isolated from exponentially growing cells using a Qiagen RNeasy mini kit (protocols available at www1.qiagen.com). more...

Organism:

Escherichia coli; Escherichia coli K-12

Type:

Expression profiling by array

Dataset:

GDS680

Platform:

GPL199

43 Samples

Download data: CEL

(Submitter supplied) Six different knock-out strains' expression data under anaerobic condition Keywords: parallel sample

Organism:

Escherichia coli K-12; Escherichia coli

Type:

Expression profiling by array

Platform:

GPL199

22 Samples

Download data: CEL

(Submitter supplied) Six different knock-out strains' expression data under aerobic condition Keywords: parallel sample

Organism:

Escherichia coli; Escherichia coli K-12

Type:

Expression profiling by array

Platform:

GPL199

21 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Escherichia coli BW25113

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20227

87 Samples

Download data: TXT

(Submitter supplied) To increase the GO coverage of Ecomics, we investigated which new conditions would lead to the most informative transcriptional profiles. We first transcriptionally profiled and included in the compendium 9 KO experiments that we had identified before as being highly informative for both GO coverage and model performance. We assumed that a GO term is represented in the compendium if the compendium has profiles where one or more genes that include that GO term have been perturbed. more...

Organism:

Escherichia coli BW25113

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20227

87 Samples

Download data: TXT

(Submitter supplied) Microarray transcriptional profiling was utilized to observe the global cellular state correlates of the physiological responses to temperature and oxygen changes. We provide evidence for the existence of correlations of Escherichia coli transcriptional responses to temperature and oxygen perturbations-precisely mirroring the co-occurrence of these parameters upon transitions between the outside world and the mammalian gastrointestinal-tract. more...

Organism:

Escherichia coli K-12

Type:

Expression profiling by array

Platform:

GPL6570

34 Samples

Download data: GPR