Genomics

Dataset Information

302

Genome-wide maps of KDM5A/JARID1A/RBP2 in mouse ES cells.


ABSTRACT: We report the identification of genomic regions bound by KDM5A in mouse embryonic stem (ES) cells and define the functional categories that these regions represent. KDM5A modifies methylated lysine residues on histone tails. We developed anti-KDM5A antibodies and set to detect genomic regions enriched with these antibodies using cells with normal Kdm5a or cells from Kdm5a knockout mice as a control. We found high enrichment with the KDM5A antibodies in normal cells when compared with the genomic background. We found striking identity in the regions enriched with these antibodies in normal cells when compared with the total genomic DNA or with KDM5A ChIP assays from Kdm5a KO cells, showing that the antibodies are specific. Examination of target genes in ES cells

ORGANISM(S): Mus musculus  

SUBMITTER: Elizaveta Benevolenskaya   William G Kaelin Jr  Elizaveta V Benevolenskaya  Abul Islam 

PROVIDER: E-GEOD-28343 | ArrayExpress | 2012-10-04

SECONDARY ACCESSION(S): SRP006295GSE28343PRJNA139451

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

Genome-wide analysis using ChIP to identify isoform-specific gene targets.

Beshiri Michael L ML   Islam Abul A   DeWaal Dannielle C DC   Richter William F WF   Love Jennifer J   Lopez-Bigas Nuria N   Benevolenskaya Elizaveta V EV  

Journal of visualized experiments : JoVE 20100707 41


Recruitment of transcriptional and epigenetic factors to their targets is a key step in their regulation. Prominently featured in recruitment are the protein domains that bind to specific histone modifications. One such domain is the plant homeodomain (PHD), found in several chromatin-binding proteins. The epigenetic factor RBP2 has multiple PHD domains, however, they have different functions (Figure 4). In particular, the C-terminal PHD domain, found in a RBP2 oncogenic fusion in human leukemia  ...[more]

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