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Genome-wide maps of ParBF (SopB) binding along DNA in E. coli

ABSTRACT: We report the genome-wide analysis from chromatin immunoprecipitated DNA (ChIP-sequencing) at very high resolution (about 50 millions reads) of the DNA binding pattern of ParBF (SopB) of plasmid F

ORGANISM(S): Escherichia coli

PROVIDER: GSE67869 | GEO | 2015/09/04

SECONDARY ACCESSION(S): PRJNA281206

REPOSITORIES: GEO

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Genome-wide maps of ParBF (SopB) binding along DNA in E. coli

Project description:We report the genome-wide analysis from chromatin immunoprecipitated DNA (ChIP-sequencing) at very high resolution (about 50 millions reads) of the DNA binding pattern of ParBF (SopB) of plasmid F Differencial examination of ParBF binding by comparing input and IP (anti-SopB antibody) samples

2015-09-04 | E-GEOD-67869 | biostudies-arrayexpress

Genome-wide maps of ParBF (SopB) binding on plasmid F or E.coli chromosome carrying parSF

Project description:We report the genome-wide analysis from chromatin immunoprecipitated DNA (ChIP-sequencing) at very high resolution of the DNA binding pattern of ParBF (SopB) either on the full length plasmid F or on E. coli chromosome carrying the parSF centromere sequence. We also varied the intracellular ParBF concentration to discriminate between the several proposed mechanism of partition complexes assembly.

2018-10-30 | GSE115274 | GEO

ParBF DNA binding profiles over various supercoiling level and on linear DNA

Project description:We report the genome-wide analysis from chromatin immunoprecipitated DNA (ChIP-sequencing) of the DNA binding pattern of ParBF (SopB) of plasmid F. This study, performed in E. coli and Salmonella typhimurium, investigates the impact of DNA supercoiling on ParBF DNA binding profiles in vivo. We found that variation in DNA supercoiling does not significantly affect the ParB DNA binding profiles even on linear DNA.

2024-07-01 | GSE256357 | GEO

Genome-wide maps of ParBVc1 binding on V .cholerae genome

2018-11-13 | GSE114980 | GEO

Escherichia coli

Project description:Genome-wide maps of ParBF (SopB) binding along DNA in E. coli

| PRJNA281206 | ENA

Genome-wide maps of ParBF (SopB) binding on plasmid F or E.coli chromosome carrying parSF

Project description:Genome-wide maps of ParBF (SopB) binding on plasmid F or E.coli chromosome carrying parSF

| PRJNA474445 | ENA

Genome-wide maps of MBD1 in mouse dentate gyrus

Project description:We report the MBD1 binding profiles in mouse dentate gyrus by sequencing MBD1 chromatin immunoprecipitated DNA

2018-05-15 | GSE98975 | GEO

Genome-wide maps of chromatin bound by HDAC4 in proliferating muscle cells

Project description:NGS technology was used for high-throughput profiling of DNA loci bound by HDAC4 in muscle cells in growth condition. Chromatin was immunoprecipitated from C2C12 cells and IP with anti-HDAC4 antibody. Libraries were then generated, processed with Illumina cBot for cluster generation on the flowcell, and sequenced on single-end 50 bp mode at the multiplexing level requested on HiSeq2500. ChIP-Seq standard bioinformatics analysis and functional annotation revealed that HDAC4 predominantly binds to the gene body (UTR5, introns and exons) of coding genes, rather than to upstream regulatory regions or non-coding RNAs in proliferating muscle cells.

2018-02-28 | GSE106446 | GEO

ChIP-seq of the multiple antibiotic resistance activator (MarA) protein and RNA polymerase sigma70 subunit of Enterotoxigenic Escherichia coli strain H10407

Project description:The experiment contains ChIP-seq data for Enterotoxigenic Escherichia coli strain H10407 transformed with plasmid pRGM9818. The strain was grown at 37 degrees in LB medium and crosslinked with 1 % (v/v) formaldehyde. After sonication, to break open cells and fragment DNA, immunoprecipitations were done using antibodies against MarA, MarR or the RNA polymerase sigma 70 subunit. Libraries were prepared using DNA remaining after immunoprecipitation. Note that the MarR immunoprecipitations were not successful but the data served as a useful control for non-specifically immunoprecipitated DNA sequences.

2017-09-30 | E-MTAB-5521 | biostudies-arrayexpress

Expression data from Escherichia coli

Project description:Transcription profiles in BL21, BL21/pOri1 and BL21/pOri2 were analysed using DNA microarray technology. BL21, BL21/pOri1 or BL21/pOri2 strains were cultured at chemostat status and harvested after the cultivation arrived steady status. Keywords: Effects of plasmid DNA on Escherichia coli metabolism

2006-07-07 | GSE5239 | GEO

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