Genome-wide gene expression and identification of RNA polymerase, RpoD, and RpoS binding sites in Klebsiella pneumoniae MGH 78578
Ontology highlight
ABSTRACT:
ORGANISM(S): Klebsiella pneumoniae subsp. pneumoniae MGH 78578
SUBMITTER: Bernhard Palsson
PROVIDER: E-GEOD-36055 | biostudies-arrayexpress |
REPOSITORIES: biostudies-arrayexpress
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Project description:Genome-wide identification of RNA polymerase (RNAP) binding sites were performed in Klebsiella pneumoniae MGH 78578 (KP). Anti-RNAP is used to capture the RNAP in KP. ChIP-chip was performed on tiling array specifically made for KP. Comparison ChIP by anti-RNAP antibody vs ChIP by normal mouse IgG (control, mock IP)
2012-12-31 | E-GEOD-35927 | biostudies-arrayexpress
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2012-05-29 | E-GEOD-38180 | biostudies-arrayexpress
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2010-07-07 | E-GEOD-22719 | biostudies-arrayexpress
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2010-07-07 | E-GEOD-22722 | biostudies-arrayexpress
Project description:modENCODE_submission_2604 This submission comes from a modENCODE project of Jason Lieb. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: The focus of our analysis will be elements that specify nucleosome positioning and occupancy, control domains of gene expression, induce repression of the X chromosome, guide mitotic segregation and genome duplication, govern homolog pairing and recombination during meiosis, and organize chromosome positioning within the nucleus. 126 strategically selected targets include key histone modifications, histone variants, RNA polymerase II isoforms, dosage-compensation proteins, centromere components, homolog-pairing facilitators, recombination markers, and nuclear-envelope constituents. We will integrate information generated with existing knowledge on the biology of the targets, perform ChIP-chip analysis on mutant and RNAi extracts lacking selected target proteins, use extrachromosomal arrays to assess the ability of candidate identified sequence motifs to recruit targets in vivo, identify tissue-specific patterns of selected targets, and create integrated, quantitative models of transcription and whole-chromosome functions. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: CHIP-chip EXPERIMENT TYPE: CHIP-chip. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Early Embryo; Genotype: wild type; Sex: mixed Male and Hermaphrodite population; NUMBER OF REPLICATES: 2; EXPERIMENTAL FACTORS: Developmental Stage Early Embryo; temperature 20; Antibody ab9048 H3K36me1:206009 (target is H3K36me1); Strain N2
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