Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Pseudomonas aeruginosa RhlR ChIP-seq

ABSTRACT: 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.

INSTRUMENT(S): NextSeq 500

ORGANISM(S): Pseudomonas aeruginosa

SUBMITTER: Anne Stringer

PROVIDER: E-MTAB-12966 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

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

ChIP-seq of sigma 70 in wild-type and hns mutant Escherichia coli K-12 MG1655

Project description:We mapped the genome-wide binding of sigma 70 in E. coli K-12 MG1655 and an hns mutant that is otherwise isogenic using ChIP coupled with deep sequencing (ChIP-seq). We show that intragenic binding of sigma 70 is increased in the hns mutant.

2013-12-15 | E-MTAB-2148 | 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

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

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

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

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

Nus factors prevent premature transcription termination of bacterial CRISPR arrays

Project description:We used ChIP-seq to map binding of the CRISPR surveillance complex, Cascade, in a Salmonella enterica serovar Typhimurium strain lacking the gene encoding the endonuclease Cas3. We performed ChIP-seq in strains with wild-type and mutant sequences upstream of the two CRISPR arrays, and in strains with wild-type and mutant nusE genes to determine the impact of Nus factor antitermination on CRISPR array function.

2018-10-13 | E-MTAB-7242 | biostudies-arrayexpress

The evolutionary impact of Intragenic FliA Promoters

Project description:We looked at binding sites in a FliA FLAG-tagged wild-type Salmonella enterica serovar Typhimurium strain.

2017-09-18 | E-MTAB-6049 | biostudies-arrayexpress