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Series GSE12646 Query DataSets for GSE12646
Status Public on Jan 09, 2009
Title Chromatin Signatures in Multipotent Human HSCs Indicate the Fate of Bivalent Genes during Differentiation
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by array
Summary Histone modifications have been implicated in stem cell maintenance and differentiation. We have analyzed genome-wide changes in gene expression and histone modifications during differentiation of multipotent human primary hematopoietic stem cells/progenitor cells (HSCs/HPCs) into erythrocyte precursors. Our data indicate that H3K4me1, H3K9me1, and H3K27me1 associate with enhancers of differentiation genes prior to their activation and correlate with basal expression, suggesting that these monomethylations are involved in the maintenance of activation potential required for differentiation. In addition, although the majority of genes associated with both H3K4me3 and H3K27me3 in HSCs/HPCs become silent and lose H3K4me3 after differentiation, those that lose H3K27me3 and become activated after differentiation are associated with increased levels of H2A.Z, H3K4me1, H3K9me1, H4K20me1, and RNA polymerase II in HSCs/HPCs. Thus, our data suggest that gene expression changes during differentiation are programmed by chromatin modifications present at the HSC/HPC stage and provide a resource for enhancer and promoter identification.
Overall design Genome-wide analysis of 8 histone methylations, H2AZ, and RNA Polymerase II in human CD133+ and CD36+ cells. (20 samples in total) and global change in gene expression in human CD133+ and CD36+ cells. (4 samples in total)
Contributor(s) Cui K, Zang C, Roh T, Schones DE, Childs R, Peng W, Zhao K
Citation(s) 19128795
Submission date Sep 02, 2008
Last update date May 15, 2019
Contact name Chongzhi Zang
Organization name University of Virginia
Street address P. O. Box 800717
City Charlottesville
State/province VA
ZIP/Postal code 22908
Country USA
Platforms (2)
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
GPL9052 Illumina Genome Analyzer (Homo sapiens)
Samples (24)
GSM317582 CD133-H2AZ
GSM317583 CD133-H3K27me1
GSM317584 CD133-H3K27me3
SRA SRP000801
BioProject PRJNA113045

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
GSE12646_CD133-Promoter-pattern.txt.gz 116.6 Kb (ftp)(http) TXT
GSE12646_CD36-Promoter-pattern.txt.gz 117.4 Kb (ftp)(http) TXT
GSE12646_RAW.tar 2.0 Gb (http)(custom) TAR (of BED, CEL, CHP, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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