Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RIL-seq of EPEC E2348/69 hfq-flag, in virulence activating and non-activating conditions.

ABSTRACT: RIL-seq experiment of EPEC hfq-flag mutant, in activating- conditions:growth on DMEM at 37°C to mid exponential growth phase (e.g., OD600=0.3). In these conditions EPEC strongly expresses its major virulence components, T3SS and BFP, mimicking infection. Non-activating conditions: overnight growth of static culture on LB medium at 37°C where virulence factors are not expressed. RIL-seq experiments are designed to reveal the interactions of sRNA and their targets.

INSTRUMENT(S): NextSeq 500

ORGANISM(S): Escherichia coli

SUBMITTER: Sivan Pearl

PROVIDER: E-MTAB-8806 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

RNA-seq of EPEC E2348/69 in virulence activating and non-activating conditions. Comparison of wt and dhfq strains.

Project description:Compared the transcriptome of wild type EPEC with that of an isogenic Δhfq mutant. Comparing activating- conditions:growth on DMEM at 37°C to mid exponential growth phase (e.g., OD600=0.3). In these conditions EPEC strongly expresses its major virulence components, T3SS and BFP, mimicking infection. Non-activating conditions: overnight growth of static culture on LB medium at 37°C where virulence factors are not expressed.

2021-01-29 | E-MTAB-8804 | biostudies-arrayexpress

RIL-seq of EPEC E2348/69 hfq-flag, in virulence activating and non-activating conditions.

Project description:RIL-seq of EPEC E2348/69 hfq-flag, in virulence activating and non-activating conditions.

| PRJEB36843 | ENA

RNA-seq files of Virulent and Avirulent EPEC microcolonies from aerobic, butyrate, infant stool metabolites and anaerobic conditions

Project description:EPEC wild type E2348/69 (strain O127:H6) bacteria were grown overnight (ON) in LB medium (Sigma-Aldrich) at 37°C without shaking, diluted 1:40 into DMEM-HEPES (Gibco, Israel) medium and incubated for 3h at 37°C without shaking to exponential phase (optical density (OD) ~ 0.6). Bacteria were plated on LB plate with streptomycin (50 µg/ml), incubated at 32°C for 15h (for aerobic LB) or for 12h (for aerobic butyrate and infant stool metabolites conditions) or at 37°C (for anaerobic condition) for 12 h and colonies of two sizes (Virulent & Avirulent) were sampled, RNA was extracted and sequencing libraries were constructed based on the RNAtag-Seq protocol (Shishkin et al., 2015) with several modifications.

2025-08-04 | E-MTAB-13486 | biostudies-arrayexpress

RNA-seq of EPEC E2348/69 in virulence activating and non-activating conditions. Comparison of wt and dhfq strains.

Project description:RNA-seq of EPEC E2348/69 in virulence activating and non-activating conditions. Comparison of wt and dhfq strains.

| PRJEB36845 | ENA

CLIP-seq of CsrA foci in Enteropathogenic E. coli

Project description:The RNA content of the CsrA foci. EPEC (E2348/69 (strain O127:H6)) expressing CsrA-FLAGx3-GFP or wild-type EPEC expressing untagged CsrA (negative control) were grown to OD 0.6 in DMEM and subjected to the foci-enrichment protocol, followed by RNA extraction and library preparation. Six libraries were prepared, containing three biological repeats of csrA-3 x flag-gfp and three repeats of wt.

2025-04-14 | E-MTAB-14951 | biostudies-arrayexpress

Ler regulation in EPEC

Project description:Transcriptional profiling of wt and ler- EPEC and O157 E. coli strains at mid log and early stationary growth phases

2013-03-31 | GSE38876 | GEO

Ler regulation in EPEC

Project description:Ler regulation in EPEC

| PRJNA169132 | ENA

Ler regulation in EPEC

Project description:Transcriptional profiling of wt and ler- EPEC and O157 E. coli strains at mid log and early stationary growth phases wt vs. Ler- at OD 0.3 and 0.9. Biological replicates: 4 independently grown. Four replicates per array.

2013-03-31 | E-GEOD-38876 | biostudies-arrayexpress

Transcriptional response induced by enteropathogenic Escherichia coli (EPEC) in mouse intestinal epithelial cells in vivo

Project description:In order to identify genes that were differentally regulated upon oral infection with EPEC, we isolated 8 days post-infection intestinal epithelial cells (IECs) from the small intestine of C57BL/6 neonate mice that were left untreated or orally infected with 5x104 WT EPEC E2348/69 or with 5x104 of the isogenic mutant ΔescV on their first day of life.

2016-04-20 | GSE71685 | GEO

mito-TAILS analysis of EPEC infection

Project description:Mito-TAILS N-terminomics analysis of proteolytic events during EPEC infection of human epithelial cells, on whole-cell level and mitochondria.

2020-05-21 | PXD016994 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data