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 (1). creators-Schalkwyk=3ALeonard_C=3A=3A. DOI https://doi.org/10.1038/ncomms7363
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 (1). creators-Schalkwyk=3ALeonard_C=3A=3A. DOI https://doi.org/10.1038/ncomms7363
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 (1). creators-Schalkwyk=3ALeonard_C=3A=3A. DOI https://doi.org/10.1038/ncomms7363
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.
Item Type: | Article |
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Uncontrolled Keywords: | Animals; Humans; Mice; Evolution, Molecular; DNA Methylation; Gene Expression Regulation; Histone Code; Synteny; Genome, Human; Epigenomics |
Subjects: | Q Science > QH Natural history > QH301 Biology |
Divisions: | Faculty of Science and Health Faculty of Science and Health > Life Sciences, School of |
SWORD Depositor: | Unnamed user with email elements@essex.ac.uk |
Depositing User: | Unnamed user with email elements@essex.ac.uk |
Date Deposited: | 23 Feb 2015 16:42 |
Last Modified: | 16 May 2024 16:44 |
URI: | http://repository.essex.ac.uk/id/eprint/13009 |
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Filename: ncomms7363.pdf
Licence: Creative Commons: Attribution 3.0