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Series GSE44757 Query DataSets for GSE44757
Status Public on Mar 01, 2013
Title DNA methylation profiling by HELP-seq in Dnmt1+/+ mouse embryonic fibroblasts
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
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 DNA methylation levels in Dnmt1+/+ mouse embryonic fibroblasts measured by HpaII tiny fragment Enrichment by Ligation-mediated PCR Sequencing (HELP-seq)
 
Contributor(s) Reddington JP, Meehan RR
Citation(s) 23531360
Submission date Feb 28, 2013
Last update date May 15, 2019
Contact name James P Reddington
Organization name EMBL
Street address Meyerhofstrasse 1
City Heidelberg
ZIP/Postal code 69115 Heidelberg
Country Germany
 
Platforms (1)
GPL9250 Illumina Genome Analyzer II (Mus musculus)
Samples (1)
GSM1090109 Dnmt1+/+ MEF
This SubSeries is part of SuperSeries:
GSE44278 Redistribution of H3K27me3 upon DNA hypomethylation results in de-repression of polycomb-target genes
Relations
BioProject PRJNA191566
SRA SRP018929

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
GSE44757_RAW.tar 1.8 Mb (http)(custom) TAR (of BEDGRAPH)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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