Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

50 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

HilD ChIP Seq

ABSTRACT: HilD is a regulator of Salmonella pathogenicity island 1 (SPI-1) virulence genes in Salmonella enterica serovar Typhimurium. To identify novel HilD-regulated genes, we mapped the genome-wide association of HilD in S. Typhimurium under SPI-1-inducing conditions (high salt, low aeration) using ChIP-seq. HilD was C-terminally tagged with 3 FLAG tags in strain 14028s.

INSTRUMENT(S): Helicos

ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium str. 14028s Wu

SUBMITTER: Joseph Wade

PROVIDER: E-MTAB-1848 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

SPI-1 transcription factor ChIP-Seq

Project description:To generate and compile data from ChIP-Seq libraries. Looking at genome-wide binding of transcription factors HilD, HilC, RtsA, RtsB, SprB, and InvF under SPI-1 inducing growth conditions in duplicate.

2015-11-05 | E-MTAB-3987 | biostudies-arrayexpress

ChIP-seq to investigate the role of FliA-transcribed protein coding genes in Salmonella Typhimurium

Project description:FliA in S. Typhimurium directs transcription of large numbers of unstable, non-coding RNAs from intragenic promoters. Also in this study, we identify two previously unreported FliA-transcribed protein coding genes, including sdiA, which encodes a transcription factor that responds to quorum sensing signals produced by other bacteria.

2020-09-09 | E-MTAB-9503 | biostudies-arrayexpress

ChIP-Seq DnaA-SPA and AcpS-SPA control

Project description:ChIP-seq was performed to map the association of SPA-tagged DnaA across the Escherichia coli MG1655 chromosome during exponential phase growth in LB. As a control to remove background, ChIP-Seq was also performed on SPA-tagged AcpS, a protein that is not known to bind DNA.

2022-10-16 | E-MTAB-12223 | biostudies-arrayexpress

ChIP-seq of Escherichia coli RpoS during stationary phase

Project description:To determine sites where RpoS binds (and hence likely plays a direct role in transcription), we used ChIP-seq to map the association of RpoS across the Escherichia coli chromosome during stationary phase growth in minimal medium. To facilitate ChIP, RpoS was C-terminally SPA-tagged at its native locus.

2016-12-23 | E-MTAB-5339 | biostudies-arrayexpress

Pseudomonas aeruginosa RhlR ChIP-seq

Project description:We performed ChIP-seq analyses of RhlR to map the C4-homoserine lactone-dependent and PqsE-dependent RhlR binding sites in the P. aeruginosa genome.

2023-06-10 | E-MTAB-12966 | biostudies-arrayexpress

Sequence Requirements for Cascade Function in a Type I-E CRISPR System: ChIP-Seq

Project description:We used ChIP-seq to map binding of the CRISPR surveillance complex, Cascade, in an E. coli strain lacking the endonuclease Cas3. These data enabled us to determine the precise sequence requirements for Cascade binding.

2017-08-24 | E-MTAB-5970 | biostudies-arrayexpress

ETEC H10407 ChIP-Seq

Project description:To generate and compile data from ChIP-Seq libraries. Looking at CRP, H-NS, and sigma70 binding genome wide under M9 minimal growth conditions in duplicate.

2014-10-16 | E-MTAB-2917 | biostudies-arrayexpress

MG1655 flagellar regulator ChIP-seq (FlhD, FlhC, FliA)

Project description:We mapped the genome-wide binding of the flagellar regulators FlhD, FlhC, and FliA in FLAG-tagged derivatives of E. coli K-12 MG1655 using ChIP coupled with deep sequencing (ChIP-seq). We identify new binding sites for each factor.

2014-04-10 | E-MTAB-2457 | biostudies-arrayexpress

Genome-Scale Mapping of Escherichia coli σ54 Reveals Widespread, Conserved Intragenic Binding

Project description:We investigated the genome-wide binding sites for sigma54 and RNA polymerase in wild-type Escherichia coli MG1655.

2015-08-06 | E-MTAB-3697 | biostudies-arrayexpress

Salmonella 14028s AraC ChIP-Seq

Project description:We mapped the genome-wide binding of C-terminally FLAG-tagged AraC in S. enterica subsp. enterica serovar Typhimurium strain 14028s using ChIP coupled with deep sequencing (ChIP-seq). We identified five putative target loci for AraC: upstream of araB/araC, araE, araJ, STM14_0178, and within sseD.

2013-10-09 | E-MTAB-1915 | biostudies-arrayexpress

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