Integrative analysis of tissue-specific methylation and alternative splicing identifies conserved transcription factor binding motifs.

ABSTRACT: The exact role of intragenic DNA methylation in regulating tissue-specific gene regulation is unclear. Recently, the DNA-binding protein CTCF has been shown to participate in the regulation of alternative splicing in a DNA methylation-dependent manner. To globally evaluate the relationship between DNA methylation and tissue-specific alternative splicing, we performed genome-wide DNA methylation profiling of mouse retina and brain. In protein-coding genes, tissue-specific differentially methylated regions (T-DMRs) were preferentially located in exons and introns. Gene ontology and evolutionary conservation analysis suggest that these T-DMRs are likely to be biologically relevant. More than 14% of alternatively spliced genes were associated with a T-DMR. T-DMR-associated genes were enriched

SUBMITTER: Wan J 

PROVIDER: S-EPMC3794605 | biostudies-literature | 2013 Oct

REPOSITORIES: biostudies-literature