Human Gene Set: DELACROIX_RAR_BOUND_ES

For the Mouse gene set with the same name, see DELACROIX_RAR_BOUND_ES

Standard name DELACROIX_RAR_BOUND_ES
Systematic name M2466
Brief description Genes with DNA sequences bound by RARA and RARG [GeneID=5914] [GeneID=5916] in ES cells.
Full description or abstract All-trans retinoic acid (RA) induces transforming growth factor beta (TGF-beta)-dependent autocrine growth of mouse embryonic fibroblasts (MEFs). We have used chromatin immunoprecipitation to map 354 RA receptor (RAR) binding loci in MEFs, most of which were similarly occupied by the RAR alpha and RAR gamma receptors. Only a subset of the genes associated with these loci are regulated by RA, among which are several critical components of the TGF-beta pathway. We also show RAR binding to a novel series of target genes involved in cell cycle regulation, transformation, and metastasis, suggesting new pathways by which RA may regulate proliferation and cancer. Few of the RAR binding loci contained consensus direct-repeat (DR)-type elements. The majority comprised either degenerate DRs or no identifiable DRs but anomalously spaced half sites. Furthermore, we identify 462 RAR target loci in embryonic stem (ES) cells and show that their occupancy is cell type specific. Our results also show that differences in the chromatin landscape regulate the accessibility of a subset of more than 700 identified loci to RARs, thus modulating the repertoire of target genes that can be regulated and the biological effects of RA.
Collection C2: Curated
      CGP: Chemical and Genetic Perturbations
Source publication Pubmed 19884340   Authors: Delacroix L,Moutier E,Altobelli G,Legras S,Poch O,Choukrallah MA,Bertin I,Jost B,Davidson I
Exact source Table 3S: RAR-bound loci in ES
Related gene sets (show 3 additional gene sets from the source publication)

(show 5 gene sets from the same authors)
External links
Filtered by similarity ?
Source species Mus musculus
Contributed by Arthur Liberzon (MSigDB Team)
Source platform or
identifier namespace		 MOUSE_GENE_SYMBOL
Dataset references  
Download gene set format: grp | gmt | xml | json | TSV metadata
Compute overlaps ? (show collections to investigate for overlap with this gene set)
Compendia expression profiles ? NG-CHM interactive heatmaps
(Please note that clustering takes a few seconds)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)

Legacy heatmaps (PNG)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
Advanced query Further investigate these 465 genes
Gene families ? Categorize these 465 genes by gene family
Show members (show 487 source identifiers mapped to 465 genes)
Version history 3.1: First introduced

See MSigDB license terms here. Please note that certain gene sets have special access terms.