Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A Systems Biology Approach To Disentangle the Direct and Indirect Effects of Global Transcription Factors on Gene Expression in Escherichia coli

ABSTRACT: We report high-throughput RNA sequencing of WT, ΔfnrΔarcA (FA), ΔfnrΔihf (FI) and ΔarcAΔihf (AI) strains in the exponential phase under anaerobic fermentative conditions

ORGANISM(S): Escherichia coli str. K-12 substr. MG1655

PROVIDER: GSE195954 | GEO | 2022/11/30

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Metabolomic study of Escherichia coli K-12 MG1655 WT and its transcriptional regulator double mutants under anaerobic fermentation conditions

Project description:Metabolomic analysis of Wildtype, fnr_arcA (FA), arcA_ihf (AI) and fnr_ihf (FI) mutants in glucose minimal media under anaerobic fermentation conditions during its exponential phase of growth. Three biological and two technical replicate samples (n=6) were harvested for each of the strains while growing in a bioreactor anaerobically at 37 degrees Celsius and 150 rpm. This study aims to characterize and compare the metabolic profiles of all these strains.

2022-02-02 | ST002076 | MetabolomicsWorkbench

Global regulators fine-tune the translation and metabolic machinery in Escherichia coli under proteome-efficient anaerobic fermentation

Project description:We report high-throughput RNA sequencing of WT, Δfnr, ΔarcA and Δihf in the exponential phase under anaerobic fermentative conditions

2021-02-28 | GSE153906 | GEO

Structural systems biology evaluation of metabolic thermotolerance in Escherichia coli

Project description:Investigation of whole genome gene expression level in E. coli K-12 MG1655 in glucose M9 minimal media with/without heatshock A six chip study using total RNA recovered from E. coli K-12 MG1655 grown up to OD600nm 0.6 (mid-exponential phase) in M9 minimal media supplemented with 0.2% glucose with/without heatshock in 42oC. The high-density oligonucleotide tiling arrays used were consisted of 371,034 oligonucleotide probes with 50-bp length that are spaced 25 bp apart across the E. coli genome (NimbleGen). Experiments were performed with three biological replicates.

2013-06-20 | E-GEOD-42675 | biostudies-arrayexpress

Structural systems biology evaluation of metabolic thermotolerance in Escherichia coli

Project description:Investigation of whole genome gene expression level in E. coli K-12 MG1655 in glucose M9 minimal media with/without heatshock

2013-06-20 | GSE42675 | GEO

Genome-wide analysis of FNR and σ70 in E. coli under aerobic and anaerobic growth conditions.

Project description:We found many binding sites for FNR under glucose fermentative anaerobic growth conditions. Also, many binding sites were identified for σ70 under both aerobic and anaerobic growthin conditions. Descirbed in the manuscript "Genome-scale Analysis of E. coli FNR Reveals the Complexity of Bacterial Regulon Structure"

2013-06-20 | GSE41187 | GEO

D. vulgaris WT & DsrC mutants -- respiration & fermentation

Project description:diDO-IPTL proteomics data of Desulfovibrio vulgaris Hildenborough wild type and two DsrC point mutants (IPFG07 & IPFG09) under sulfate-reducing (respiration) and fermentative growth (late-exponential phase)

2022-10-27 | MSV000090596 | MassIVE

The response regulator ArcA uses a diverse binding site architechture to globally regulate carbon oxidation in E. coli [ChIP-Seq]

Project description:We found many binding sites for ArcA under glucose fermentative anaerobic growth conditions. Descirbed in the manuscript "The response regulator ArcA uses a diverse binding site architechture to globally regulate carbon oxidation in E. coli"

2013-10-17 | GSE46414 | GEO

Escherichia coli DH5alpha Transcriptome Sequencing under Wi-Fi radiofrequency radiation

Project description:Purpose: In this study, Escherichia coli DH5alpha whole transcriptome sequencing was performed in order to compare the different gene expression profiles between control and exposed to Wi-Fi radiofrequency radiations. Methods:Escherichia coli DH5alpha were exposed to Wi-Fi radiations. Total RNA samples( control and exposed ) were extracted by bacteria protect-Rneasy kit,treated with DNAase and subjected to sequnecing using an Illumina-NovaSeq 6000 platform. Library preparation and sequencing were performed by Macrogen (south korea).Trimmed reads are mapped to reference genome with Bowtie. HTseq was used for expression profiling. Expression profile was calculated for each sample and gene as read count.

2019-10-21 | GSE126584 | GEO

The response regulator ArcA uses a diverse binding site architechture to globally regulate carbon oxidation in E. coli [ChIP-Seq]

2013-10-17 | E-GEOD-46414 | biostudies-arrayexpress