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https://hdl.handle.net/10356/99700
Title: | Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation | Authors: | Li, Guoliang Ruan, Xiaoan Auerbach, Raymond K. Sandhu, Kuljeet Singh Zheng, Meizhen Wang, Ping Poh, Huay Mei Goh, Yufen Lim, Joanne Zhang, Jingyao Sim, Hui Shan Peh, Su Qin Mulawadi, Fabianus Hendriyan Ong, Chin Thing Orlov, Yuriy L. Hong, Shuzhen Zhang, Zhizhuo Landt, Steve Raha, Debasish Euskirchen, Ghia Wei, Chia-Lin Ge, Weihong Wang, Huaien Davis, Carrie Fisher-Aylor, Katherine I. Mortazavi, Ali Gerstein, Mark Gingeras, Thomas Wold, Barbara Sun, Yi Cheung, Edwin Liu, Edison Sung, Wing-Kin Snyder, Michael Ruan, Yijun Fullwood, Melissa Jane |
Keywords: | DRNTU::Science::Biological sciences | Issue Date: | 2012 | Source: | Li, G., Ruan, X., Auerbach, R. K., Sandhu, K. S., Zheng, M., Wang, P., et al. (2012). Extensive Promoter-Centered Chromatin Interactions Provide a Topological Basis for Transcription Regulation. Cell, 148(1), 84-98. | Series/Report no.: | Cell | Abstract: | Higher-order chromosomal organization for transcription regulation is poorly understood in eukaryotes. Using genome-wide Chromatin Interaction Analysis with Paired-End-Tag sequencing (ChIA-PET), we mapped long-range chromatin interactions associated with RNA polymerase II in human cells and uncovered widespread promoter-centered intragenic, extragenic, and intergenic interactions. These interactions further aggregated into higher-order clusters, wherein proximal and distal genes were engaged through promoter-promoter interactions. Most genes with promoter-promoter interactions were active and transcribed cooperatively, and some interacting promoters could influence each other implying combinatorial complexity of transcriptional controls. Comparative analyses of different cell lines showed that cell-specific chromatin interactions could provide structural frameworks for cell-specific transcription, and suggested significant enrichment of enhancer-promoter interactions for cell-specific functions. Furthermore, genetically-identified disease-associated noncoding elements were found to be spatially engaged with corresponding genes through long-range interactions. Overall, our study provides insights into transcription regulation by three-dimensional chromatin interactions for both housekeeping and cell-specific genes in human cells. | URI: | https://hdl.handle.net/10356/99700 http://hdl.handle.net/10220/10795 |
ISSN: | 0092-8674 | DOI: | 10.1016/j.cell.2011.12.014 | Rights: | © 2012 Elsevier Inc. | Fulltext Permission: | none | Fulltext Availability: | No Fulltext |
Appears in Collections: | SBS Journal Articles |
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