DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape
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Author
Xie, Mingchao
Hong, Chibo
Zhang, Bo
Lowdon, Rebecca
Xing, Xiaoyun
Li, Daofeng
Zhou, Xin
Lee, Hyung Joo
Maire, Cecile L.
Gascard, Philippe
Sigaroudinia, Mahvash
Tlsty, Thea D.
Kadlecek, Theresa
Weiss, Arthur
O’Geen, Henriette
Farnham, Peggy J.
Madden, Pamela A.F.
Mungall, Andrew J.
Tam, Angela
Kamoh, Baljit
Cho, Stephanie
Moore, Richard
Hirst, Martin
Marra, Marco A.
Costello, Joseph F.
Wang, Ting
Note: Order does not necessarily reflect citation order of authors.
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https://doi.org/10.1038/ng.2649Metadata
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Xie, M., C. Hong, B. Zhang, R. Lowdon, X. Xing, D. Li, X. Zhou, et al. 2013. “DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape.” Nature genetics 45 (7): 10.1038/ng.2649. doi:10.1038/ng.2649. http://dx.doi.org/10.1038/ng.2649.Abstract
Introduction: Transposable element (TE) derived sequences comprise half of our genome and DNA methylome, and are presumed densely methylated and inactive. Examination of the genome-wide DNA methylation status within 928 TE subfamilies in human embryonic and adult tissues revealed unexpected tissue-specific and subfamily-specific hypomethylation signatures. Genes proximal to tissue-specific hypomethylated TE sequences were enriched for functions important for the tissue type and their expression correlated strongly with hypomethylation of the TEs. When hypomethylated, these TE sequences gained tissue-specific enhancer marks including H3K4me1 and occupancy by p300, and a majority exhibited enhancer activity in reporter gene assays. Many such TEs also harbored binding sites for transcription factors that are important for tissue-specific functions and exhibited evidence for evolutionary selection. These data suggest that sequences derived from TEs may be responsible for wiring tissue type-specific regulatory networks, and have acquired tissue-specific epigenetic regulation.Other Sources
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3695047/pdf/Terms of Use
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