Super-Enhancers and Broad H3K4me3 Domains Form Complex Gene Regulatory Circuits Involving Chromatin Interactions
Stretched histone regions, such as super-enhancers and broad H3K4me3 domains, are associated with maintenance of cell identity and cancer. We connected super-enhancers and broad H3K4me3 domains in the K562 chronic myelogenous leukemia cell line as well as the MCF-7 breast cancer cell line with chrom...
| Main Authors: | , , , , , , , , , , , , , , , , |
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| Format: | Journal Article |
| Language: | English |
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2017
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| Online Access: | https://hdl.handle.net/10356/83768 http://hdl.handle.net/10220/42747 |
| _version_ | 1811684299487838208 |
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| author | Cao, Fan Fang, Yiwen Tan, Hong Kee Goh, Yufen Choy, Jocelyn Yeen Hui Koh, Bryan Thean Howe Hao Tan, Jiong Bertin, Nicolas Ramadass, Aroul Hunter, Ewan Green, Jayne Salter, Matthew Akoulitchev, Alexandre Wang, Wilson Chng, Wee Joo Tenen, Daniel G. Fullwood, Melissa Jane |
| author2 | School of Biological Sciences |
| author_facet | School of Biological Sciences Cao, Fan Fang, Yiwen Tan, Hong Kee Goh, Yufen Choy, Jocelyn Yeen Hui Koh, Bryan Thean Howe Hao Tan, Jiong Bertin, Nicolas Ramadass, Aroul Hunter, Ewan Green, Jayne Salter, Matthew Akoulitchev, Alexandre Wang, Wilson Chng, Wee Joo Tenen, Daniel G. Fullwood, Melissa Jane |
| author_sort | Cao, Fan |
| collection | NTU |
| description | Stretched histone regions, such as super-enhancers and broad H3K4me3 domains, are associated with maintenance of cell identity and cancer. We connected super-enhancers and broad H3K4me3 domains in the K562 chronic myelogenous leukemia cell line as well as the MCF-7 breast cancer cell line with chromatin interactions. Super-enhancers and broad H3K4me3 domains showed higher association with chromatin interactions than their typical counterparts. Interestingly, we identified a subset of super-enhancers that overlap with broad H3K4me3 domains and show high association with cancer-associated genes including tumor suppressor genes. Besides cell lines, we could observe chromatin interactions by a Chromosome Conformation Capture (3C)-based method, in primary human samples. Several chromatin interactions involving super-enhancers and broad H3K4me3 domains are constitutive and can be found in both cancer and normal samples. Taken together, these results reveal a new layer of complexity in gene regulation by super-enhancers and broad H3K4me3 domains. |
| first_indexed | 2024-10-01T04:26:25Z |
| format | Journal Article |
| id | ntu-10356/83768 |
| institution | Nanyang Technological University |
| language | English |
| last_indexed | 2024-10-01T04:26:25Z |
| publishDate | 2017 |
| record_format | dspace |
| spelling | ntu-10356/837682023-02-28T17:03:16Z Super-Enhancers and Broad H3K4me3 Domains Form Complex Gene Regulatory Circuits Involving Chromatin Interactions Cao, Fan Fang, Yiwen Tan, Hong Kee Goh, Yufen Choy, Jocelyn Yeen Hui Koh, Bryan Thean Howe Hao Tan, Jiong Bertin, Nicolas Ramadass, Aroul Hunter, Ewan Green, Jayne Salter, Matthew Akoulitchev, Alexandre Wang, Wilson Chng, Wee Joo Tenen, Daniel G. Fullwood, Melissa Jane School of Biological Sciences Chronic myeloid leukaemia Genome informatics Stretched histone regions, such as super-enhancers and broad H3K4me3 domains, are associated with maintenance of cell identity and cancer. We connected super-enhancers and broad H3K4me3 domains in the K562 chronic myelogenous leukemia cell line as well as the MCF-7 breast cancer cell line with chromatin interactions. Super-enhancers and broad H3K4me3 domains showed higher association with chromatin interactions than their typical counterparts. Interestingly, we identified a subset of super-enhancers that overlap with broad H3K4me3 domains and show high association with cancer-associated genes including tumor suppressor genes. Besides cell lines, we could observe chromatin interactions by a Chromosome Conformation Capture (3C)-based method, in primary human samples. Several chromatin interactions involving super-enhancers and broad H3K4me3 domains are constitutive and can be found in both cancer and normal samples. Taken together, these results reveal a new layer of complexity in gene regulation by super-enhancers and broad H3K4me3 domains. ASTAR (Agency for Sci., Tech. and Research, S’pore) Published version 2017-06-27T09:19:08Z 2019-12-06T15:31:38Z 2017-06-27T09:19:08Z 2019-12-06T15:31:38Z 2017 Journal Article Cao, F., Fang, Y., Tan, H. K., Goh, Y., Choy, J. Y. H., Koh, B. T. H., et al. (2017). Super-Enhancers and Broad H3K4me3 Domains Form Complex Gene Regulatory Circuits Involving Chromatin Interactions. Scientific Reports, 7, 2186-. 2045-2322 https://hdl.handle.net/10356/83768 http://hdl.handle.net/10220/42747 10.1038/s41598-017-02257-3 en Scientific Reports © 2017 The Author(s) (Nature Publishing Group). This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ 14 p. application/pdf |
| spellingShingle | Chronic myeloid leukaemia Genome informatics Cao, Fan Fang, Yiwen Tan, Hong Kee Goh, Yufen Choy, Jocelyn Yeen Hui Koh, Bryan Thean Howe Hao Tan, Jiong Bertin, Nicolas Ramadass, Aroul Hunter, Ewan Green, Jayne Salter, Matthew Akoulitchev, Alexandre Wang, Wilson Chng, Wee Joo Tenen, Daniel G. Fullwood, Melissa Jane Super-Enhancers and Broad H3K4me3 Domains Form Complex Gene Regulatory Circuits Involving Chromatin Interactions |
| title | Super-Enhancers and Broad H3K4me3 Domains Form Complex Gene Regulatory Circuits Involving Chromatin Interactions |
| title_full | Super-Enhancers and Broad H3K4me3 Domains Form Complex Gene Regulatory Circuits Involving Chromatin Interactions |
| title_fullStr | Super-Enhancers and Broad H3K4me3 Domains Form Complex Gene Regulatory Circuits Involving Chromatin Interactions |
| title_full_unstemmed | Super-Enhancers and Broad H3K4me3 Domains Form Complex Gene Regulatory Circuits Involving Chromatin Interactions |
| title_short | Super-Enhancers and Broad H3K4me3 Domains Form Complex Gene Regulatory Circuits Involving Chromatin Interactions |
| title_sort | super enhancers and broad h3k4me3 domains form complex gene regulatory circuits involving chromatin interactions |
| topic | Chronic myeloid leukaemia Genome informatics |
| url | https://hdl.handle.net/10356/83768 http://hdl.handle.net/10220/42747 |
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