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Series GSE44149 Query DataSets for GSE44149
Status Public on Feb 09, 2013
Title Chip-chip for H3K27me3 and H3K4me3 in DNA methylation deficient mouse embryonic fibroblasts
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary DNA methylation and the Polycomb Repression System are epigenetic mechanisms that play important roles in maintaining transcriptional repression. Recent evidence suggests that DNA methylation can attenuate the binding of Polycomb protein components to chromatin and thus plays a role in determining their genomic targeting. However, whether this role of DNA methylation is important in the context of transcriptional regulation is unclear. By genome-wide mapping of the Polycomb Repressive Complex 2 (PRC2)-signature histone mark, H3K27me3, in severely DNA hypomethylated mouse somatic cells, we show that hypomethylation leads to widespread H3K27me3 redistribution, in a manner that reflects the local DNA methylation status in wild-type cells. Unexpectedly, we observe striking loss of H3K27me3 and PRC2 from Polycomb-target gene promoters in DNA hypomethylated cells, including Hox gene clusters. Importantly, we show that many of these genes become ectopically expressed in DNA hypomethylated cells, consistent with loss of Polycomb-mediated repression. An intact DNA methylome is required for appropriate Polycomb-mediated gene repression by constraining PRC2 targeting. These observations identify a previously unappreciated role for DNA methylation in gene regulation and therefore influence our understanding of how this epigenetic mechanism contributes to normal development and disease.
 
Overall design comparison of Dnmt1+/+ vs Dnmt1-/- mouse embryonic fibroblasts
 
Contributor(s) Reddington JP, Meehan RR
Citation(s) 23531360
Submission date Feb 07, 2013
Last update date May 13, 2013
Contact name James P Reddington
Organization name EMBL
Street address Meyerhofstrasse 1
City Heidelberg
ZIP/Postal code 69115 Heidelberg
Country Germany
 
Platforms (1)
GPL16605 NimbleGen_MM9_3x720K_Refseq_Promoter [090618_MM9_Refseq_Prom_ChIP]
Samples (12)
GSM1079704 k27_wt_rep1
GSM1079705 k27_wt_rep2
GSM1079706 k27_wt_rep3
This SubSeries is part of SuperSeries:
GSE44278 Redistribution of H3K27me3 upon DNA hypomethylation results in de-repression of polycomb-target genes
Relations
BioProject PRJNA188938

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE44149_RAW.tar 346.8 Mb (http)(custom) TAR (of PAIR)
Processed data included within Sample table

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