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Intermediate DNA methylation is a conserved signature of genome regulation

Elliott, G and Hong, C and Xing, X and Zhou, X and Li, D and Coarfa, C and Bell, RJA and Maire, CL and Ligon, KL and Sigaroudinia, M and Gascard, P and Tlsty, TD and Harris, RA and Schalkwyk, LC and Bilenky, M and Mill, J and Farnham, PJ and Kellis, M and Marra, MA and Milosavljevic, A and Hirst, M and Stormo, GD and Wang, T and Costello, JF (2015) 'Intermediate DNA methylation is a conserved signature of genome regulation.' Nature Communications, 6. ISSN 2041-1723

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Abstract

© 2015 Macmillan Publishers Limited. All rights reserved. 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.

Item Type: Article
Subjects: Q Science > QH Natural history > QH301 Biology
Divisions: Faculty of Science and Health > Biological Sciences, School of
Depositing User: Leonard Schalkwyk
Date Deposited: 23 Feb 2015 16:42
Last Modified: 17 Aug 2017 17:39
URI: http://repository.essex.ac.uk/id/eprint/13009

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