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Series GSE95600 Query DataSets for GSE95600
Status Public on Aug 29, 2017
Title 5-hydroxymethylcytosine Accumulation in Postmitotic Neurons Results in Functional Demethylation of Expressed Genes [ORGANIC ChIP-Seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary 5-hydroxymethylcytosine (5hmC) occurs at maximal levels in postmitotic neurons where its accumulation is cell specific and correlated with gene expression. Here we demonstrate that the distribution of 5hmC in CG and non-CG dinucleotides is distinct, and that it reflects the binding specificity and genome occupancy of methylcytosine binding protein 2 (MeCP2). In expressed gene bodies, accumulation of 5hmCG acts in opposition to 5mCG resulting in “functional” demethylation and diminished MeCP2 binding, thus facilitating transcription. Non-CG hydroxymethylation occurs predominantly in CA dinucleotides (5hmCA) and it accumulates in regions flanking active enhancers. In these domains, oxidation of 5mCA to 5hmCA does not alter MeCP2 binding or expression of adjacent genes. We conclude that the role of 5-hydroxymethylcytosine in postmitotic neurons is to functionally demethylate expressed gene bodies while retaining the role of MeCP2 in chromatin organization.
 
Overall design Examination of methylation and hydroxymethylation per context in cerebellar granule cells and their function in MeCP2 binding.
ORGANIC ChIP-Seq dataset.
 
Contributor(s) Mellen M, Heintz N
Citation(s) 28847947
Submission date Mar 02, 2017
Last update date Oct 11, 2019
Contact name Marian Mellen
E-mail(s) mmellen@rockefeller.edu
Organization name The Rockefeller University
Street address 1230 York Avenue
City NYC
State/province NY
ZIP/Postal code 10065
Country USA
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (4)
GSM2517050 ORGANIC MeCP2 granule cells r1 IP
GSM2517051 ORGANIC MeCP2 granule cells r1 IN
GSM2517052 ORGANIC MeCP2 granule cells r2 IP
This SubSeries is part of SuperSeries:
GSE95628 5-hydroxymethylcytosine Accumulation in Postmitotic Neurons Results in Functional Demethylation of Expressed Genes
Relations
BioProject PRJNA377618
SRA SRP100974

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE95600_ORGANIC_MeCP2_GC_MellenM_genes.bed.txt.gz 605.3 Kb (ftp)(http) TXT
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Processed data are available on Series record

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