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| Status |
Public on Nov 19, 2009 |
| Title |
A Region of Human HoxD that Confers Polycomb-Group Responsiveness |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by genome tiling array
|
| Summary |
Polycomb group (PcG) proteins are essential for accurate axial body patterning during embryonic development. PcG-mediated repression is conserved in metazoans and is targeted in Drosophila by Polycomb response elements (PREs). Targeting sequences in humans have not been described. While analyzing chromatin architecture in the context of human embryonic stem cell (hESC) differentiation, we discovered a 1.8kb region between HOXD11 and HOXD12 (D11.12) that is associated with PcG proteins, is nuclease hypersensitive, and shows alteration as hESCs differentiate. D11.12 repressed luciferase expression from a reporter construct both before and after differentiation of mesenchymal stem cells into adipocytes. Full repression by D11.12 required a highly conserved region and YY1 binding sites. Repression relied upon PcG proteins Bmi1 and Eed and a YY1-interacting partner, RYBP. We conclude that D11.12 is a Polycomb-dependent regulatory region with similarities to Drosophila PREs, indicating conservation in the mechanisms that target PcG function in mammals and flies.
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| Overall design |
Data contains microarray measurements of the MNase-digested mononucleosomal fragments in hES cells, derived MSCs, osteoblasts and adipocytes. The ChIP-chip data includes Suz12, Bmi1 and H3K27me3 measurements in MSCs and adipocytes.
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| Contributor(s) |
Woo CJ, Kharchenko PV, Daheron L, Park PJ, Kingston RE |
| Citation(s) |
20818389, 20085705 |
| |
| Submission date |
Nov 16, 2009 |
| Last update date |
Mar 21, 2012 |
| Contact name |
Peter Kharchenko |
| Organization name |
Harvard Medical School
|
| Department |
DBMI
|
| Lab |
Kharchenko
|
| Street address |
10 Shattuck St.
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL9673 |
Nimblegen Homo sapiens 400K custom HOX cluster array 2 |
|
| Samples (10)
|
| GSM470914 |
H9 ES MNase-digested chromatin vs. bare genomic DNA |
| GSM470916 |
MSC MNase-digested chromatin vs. bare genomic DNA |
| GSM470917 |
Adipocytes MNase-digested chromatin vs. bare genomic DNA |
|
| Relations |
| BioProject |
PRJNA120539 |
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