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| 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
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| 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.
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| 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)
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| Contributor(s) |
Cui K, Zang C, Roh T, Schones DE, Childs R, Peng W, Zhao K |
| Citation(s) |
19128795 |
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| Submission date |
Sep 02, 2008 |
| Last update date |
May 15, 2019 |
| Contact name |
Chongzhi Zang |
| Organization name |
University of Virginia
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| Street address |
P. O. Box 800717
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| City |
Charlottesville |
| State/province |
VA |
| ZIP/Postal code |
22908 |
| Country |
USA |
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| Platforms (2) |
| GPL570 |
[HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array |
| GPL9052 |
Illumina Genome Analyzer (Homo sapiens) |
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| Samples (24)
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| Relations |
| SRA |
SRP000801 |
| BioProject |
PRJNA113045 |
| 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 Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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