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Series GSE97394 Query DataSets for GSE97394
Status Public on Mar 13, 2018
Title Mapping DNA methylation and CTCF/cohesin occupancy on nascent chromatin and DNMT-targeted nascent chromatin
Organisms Homo sapiens; Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
Summary The faithful inheritance of the epigenome is critical for cells to maintain gene expression programs and cellular identity across cell divisions. We mapped strand-specific DNA methylation after replication forks and show maintenance of the vast majority of the DNA methylome within 20 minutes of replication and inheritance of some hemimethylated CpG dinucleotides (hemiCpGs). Mapping the nascent DNA methylome targeted by each of the three DNA methyltransferases (DNMTs) reveals interactions between DNMTs and substrate daughter cytosines en route to maintenance methylation or hemimethylation. Finally, we show the inheritance of hemiCpGs at short regions flanking CCCTC-binding factor (CTCF)/cohesin binding sites in pluripotent cells. Elimination of hemimethylation causes reduced frequency of chromatin interactions emanating from these sites, suggesting a role for hemimethylation as a stable epigenetic mark regulating CTCF-mediated chromatin interactions.
 
Overall design Mapping DNA methylation and CTCF/cohesin occupancy on nascent chromatin and DNMT-targeted nascent chromatin
 
Contributor(s) Xu C, Corces VG
Citation(s) 29590048
NIH grant(s)
Grant ID Grant title Affiliation Name
P01 GM085354 Chromatin organization in human stem and differentiated cells EMORY UNIVERSITY Victor G. Corces
Submission date Apr 04, 2017
Last update date Mar 27, 2019
Contact name Chenhuan Xu
E-mail(s) chxu02@gmail.com
Organization name Emory University
Street address 1510 Clifton Rd NE
City Atlanta
State/province GA
ZIP/Postal code 30322
Country USA
 
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (53)
GSM2563783 nasBS-seq_pulse_parent_rep1
GSM2563784 nasBS-seq_pulse_parent_rep2
GSM2563785 nasBS-seq_pulse_parent_rep3
Relations
BioProject PRJNA381638
SRA SRP103077

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
GSE97394_processed_data_files.tar.gz 5.2 Gb (ftp)(http) TAR
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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