| dc.contributor |
Massachusetts Institute of Technology. Computational and Systems Biology Program |
|
| dc.contributor |
Massachusetts Institute of Technology. Department of Biology |
|
| dc.contributor |
Dadon, Daniel Benjamin |
|
| dc.contributor |
Fan, Zi Peng |
|
| dc.contributor |
Borges-Rivera, Diego Ramon |
|
| dc.contributor |
Weintraub, Abraham Selby |
|
| dc.contributor |
Jaenisch, Rudolf |
|
| dc.contributor |
Young, Richard A |
|
| dc.creator |
Ji, Xiong |
|
| dc.creator |
Powell, Benjamin E. |
|
| dc.creator |
Shachar, Sigal |
|
| dc.creator |
Hnisz, Denes |
|
| dc.creator |
Pegoraro, Gianluca |
|
| dc.creator |
Lee, Tong Ihn |
|
| dc.creator |
Misteli, Tom |
|
| dc.creator |
Dadon, Daniel Benjamin |
|
| dc.creator |
Fan, Zi Peng |
|
| dc.creator |
Borges-Rivera, Diego Ramon |
|
| dc.creator |
Weintraub, Abraham Selby |
|
| dc.creator |
Jaenisch, Rudolf |
|
| dc.creator |
Young, Richard A. |
|
| dc.date |
2017-02-23T15:24:41Z |
|
| dc.date |
2017-02-23T15:24:41Z |
|
| dc.date |
2015-12 |
|
| dc.date |
2015-10 |
|
| dc.identifier |
1934-5909 |
|
| dc.identifier |
http://hdl.handle.net/1721.1/107115 |
|
| dc.identifier |
Ji, Xiong et al. “3D Chromosome Regulatory Landscape of Human Pluripotent Cells.” Cell Stem Cell 18.2 (2016): 262–275. |
|
| dc.identifier |
https://orcid.org/0000-0002-7256-3158 |
|
| dc.identifier |
https://orcid.org/0000-0002-1650-2289 |
|
| dc.identifier |
https://orcid.org/0000-0003-0998-9882 |
|
| dc.identifier |
https://orcid.org/0000-0001-8855-8647 |
|
| dc.description |
In this study, we describe the 3D chromosome regulatory landscape of human naive and primed embryonic stem cells. To devise this map, we identified transcriptional enhancers and insulators in these cells and placed them within the context of cohesin-associated CTCF-CTCF loops using cohesin ChIA-PET data. The CTCF-CTCF loops we identified form a chromosomal framework of insulated neighborhoods, which in turn form topologically associating domains (TADs) that are largely preserved during the transition between the naive and primed states. Regulatory changes in enhancer-promoter interactions occur within insulated neighborhoods during cell state transition. The CTCF anchor regions we identified are conserved across species, influence gene expression, and are a frequent site of mutations in cancer cells, underscoring their functional importance in cellular regulation. These 3D regulatory maps of human pluripotent cells therefore provide a foundation for future interrogation of the relationships between chromosome structure and gene control in development and disease. |
|
| dc.description |
Center for Cancer Research (National Cancer Institute (U.S.)) |
|
| dc.description |
National Institutes of Health (U.S.). Intramural Research Program |
|
| dc.description |
Virginia and Daniel K. Ludwig Graduate Fellowship |
|
| dc.description |
National Institutes of Health (U.S.) (Grants HG002668 and HD 045022) |
|
| dc.description |
Simons Foundation (Grant SFLIFE 286977) |
|
| dc.format |
application/pdf |
|
| dc.language |
en_US |
|
| dc.publisher |
Elsevier |
|
| dc.relation |
http://dx.doi.org/10.1016/j.stem.2015.11.007 |
|
| dc.relation |
Cell Stem Cell |
|
| dc.rights |
Creative Commons Attribution-Noncommercial-Share Alike |
|
| dc.rights |
http://creativecommons.org/licenses/by-nc-sa/4.0/ |
|
| dc.source |
PMC |
|
| dc.title |
3D Chromosome Regulatory Landscape of Human Pluripotent Cells |
|
| dc.type |
Article |
|
| dc.type |
http://purl.org/eprint/type/JournalArticle |
|