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Series GSE59749 Query DataSets for GSE59749
Status Public on Sep 25, 2014
Title G9a/GLP-dependent H3K9me2 patterning alters chromatin structure at CpG islands in hematopoietic progenitors.
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We profiled chromatin accessibility across the genome of HSPCs treated with either a small molecule inhibitor of G9a/GLP or DMSO. We observed that chromatin accessibility is dramatically altered at the regions of H3K9me2 nucleation. We have characterized the regions of H3K9me2 nucleation, revealing that H3K9me2 is nucleated in HSPCs at CpG islands (CGIs) and CGI-like sequences across the genome. Our analysis furthermore revealed a bias of H3K9me2 nucleation towards regions with low rates of C->T deamination, which typically lack DNA methylation. Lastly we examined the interaction of H3K9me2 and DNA methylation and determined that chromatin accessibility changes upon loss of H3K9me2 are dependent on the presence of DNA methylation.
Overall design Examination of chromatin remodeling with FAIRE-seq in HSPCs treated with either a small molecule inhibitor of G9a/GLP or DMSO
Contributor(s) Schones DE, Chen X, Trac C, Setten R, Paddison PJ
Citation(s) 25237399
Submission date Jul 24, 2014
Last update date May 15, 2019
Contact name Dustin E Schones
Organization name City of Hope
Street address 1500 E Duarte Rd.
City Duarte
State/province CA
ZIP/Postal code 91010
Country USA
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (4)
GSM1446040 HSPC DMSO FAIRE Replicate 1
GSM1446041 HSPC DMSO FAIRE Replicate 2
GSM1446042 HSPC UNC FAIRE Replicate 1
BioProject PRJNA256102
SRA SRP044807

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Supplementary file Size Download File type/resource
GSE59749_DMSO-peaks.npf.txt.gz 1.2 Mb (ftp)(http) TXT
GSE59749_UNC-peaks.npf.txt.gz 1.1 Mb (ftp)(http) TXT
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