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Series GSE72853 Query DataSets for GSE72853
Status Public on Feb 25, 2017
Title Intragenic DNA methylation prevents cryptic transcription initiations on gene bodies [ChIP-seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary In mammals, DNA methylation occurs mainly at 5mC of CpG dinucleotides. The methylation on the promoter leads to the suppression of gene expression, while the functional role of gene body DNA methylation in highly expressed genes has yet to be clarified. Here, we show that the Dnmt3b-dependent intragenic DNA methylation protects the gene body from RNA Polymerase II (RNA Pol II) spurious entry and cryptic transcription initiation. Using different genome-wide approaches, we demonstrate that loss of Dnmt3b leads to an increase of the RNA Pol II engagement within gene bodies and spurious intragenic transcription initiation events. Furthermore, inhibition of RNA Pol II spurious entry depends on the enzymatic activity of the Dnmt3b recruited by H3K36me3. Thus, elongating RNA Pol II triggers an epigenetic crosstalk that involves SetD2, H3K36me3, Dnmt3b, and DNA methylation to ensure gene transcription initiation fidelity with implications for intragenic hypomethylation in cancer.
 
Overall design Genome-wide analysis of Dnmt3b role in mouse ESCs using RNA-seq.
 
Contributor(s) Neri F, Oliviero S
Citation(s) 28225755
Submission date Sep 09, 2015
Last update date Mar 22, 2019
Contact name Francesco Neri
E-mail francesco.neri@hugef-torino.org
Organization name HuGeF
Street address Via Nizza 52
City Torino
State/province Italy
ZIP/Postal code 10126
Country Italy
 
Platforms (2)
GPL16173 Illumina HiScanSQ (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (25)
GSM1873388 ChIP-seq Dnmt3b [WT]
GSM1873389 ChIP-seq Dnmt3b [Dnmt3b KO (cl. B126)]
GSM1873390 ChIP-seq IgG [WT]
This SubSeries is part of SuperSeries:
GSE72856 Intragenic DNA methylation prevents cryptic transcription initiations on gene bodies
Relations
BioProject PRJNA295206
SRA SRP063528

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
GSE72853_RAW.tar 15.2 Gb (http)(custom) TAR (of BEDGRAPH)
Raw data are available in SRA
Processed data provided as supplementary file

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