Intermediate DNA methylation is a conserved signature of genome regulation View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2015-12

AUTHORS

GiNell Elliott, Chibo Hong, Xiaoyun Xing, Xin Zhou, Daofeng Li, Cristian Coarfa, Robert J.A. Bell, Cecile L. Maire, Keith L. Ligon, Mahvash Sigaroudinia, Philippe Gascard, Thea D. Tlsty, R. Alan Harris, Leonard C. Schalkwyk, Misha Bilenky, Jonathan Mill, Peggy J. Farnham, Manolis Kellis, Marco A. Marra, Aleksandar Milosavljevic, Martin Hirst, Gary D. Stormo, Ting Wang, Joseph F. Costello

ABSTRACT

The role of intermediate methylation states in DNA is unclear. Here, to comprehensively identify regions of intermediate methylation and their quantitative relationship with gene activity, we apply integrative and comparative epigenomics to 25 human primary cell and tissue samples. We report 18,452 intermediate methylation regions located near 36% of genes and enriched at enhancers, exons and DNase I hypersensitivity sites. Intermediate methylation regions average 57% methylation, are predominantly allele-independent and are conserved across individuals and between mouse and human, suggesting a conserved function. These regions have an intermediate level of active chromatin marks and their associated genes have intermediate transcriptional activity. Exonic intermediate methylation correlates with exon inclusion at a level between that of fully methylated and unmethylated exons, highlighting gene context-dependent functions. We conclude that intermediate DNA methylation is a conserved signature of gene regulation and exon usage. More... »

PAGES

6363

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  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/ncomms7363

    DOI

    http://dx.doi.org/10.1038/ncomms7363

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1043156128

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/25691127


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