Statistical methods for detecting differentially methylated regions based on MethylCap-seq data.

ABSTRACT: DNA methylation is a well-established epigenetic mark, whose pattern throughout the genome, especially in the promoter or CpG islands, may be modified in a cell at a disease stage. Recently developed probabilistic approaches allow distributing methylation signals at nucleotide resolution from MethylCap-seq data. Standard statistical methods for detecting differential methylation suffer from 'curse of dimensionality' and sparsity in signals, resulting in high false-positive rates. Strong correlation of signals between CG sites also yields spurious results. In this article, we review applicability of high-dimensional mean vector tests for detection of differentially methylated regions (DMRs) and compare and contrast such tests with other methods for detecting DMRs. Comprehensive simulation s

SUBMITTER: Ayyala DN 

PROVIDER: S-EPMC5142008 | biostudies-literature | 2016 Nov

REPOSITORIES: biostudies-literature