Development and application of an integrated allele-specific pipeline for methylomic and epigenomic analysis (MEA).

ABSTRACT:

Background

Allele-specific transcriptional regulation, including of imprinted genes, is essential for normal mammalian development. While the regulatory regions controlling imprinted genes are associated with DNA methylation (DNAme) and specific histone modifications, the interplay between transcription and these epigenetic marks at allelic resolution is typically not investigated genome-wide due to a lack of bioinformatic packages that can process and integrate multiple epigenomic datasets with allelic resolution. In addition, existing ad-hoc software only consider SNVs for allele-specific read discovery. This limitation omits potentially informative INDELs, which constitute about one fifth of the number of SNVs in mice, and introduces a systematic reference bias in allele-specifi

SUBMITTER: Richard Albert J 

PROVIDER: S-EPMC6003194 | biostudies-literature | 2018 Jun

REPOSITORIES: biostudies-literature