PT  - JOURNAL ARTICLE
AU  - Boying Gong
AU  - Elizabeth Purdom
TI  - MethCP: Differentially Methylated Region Detection with Change Point Models
AID  - 10.1101/265116
DP  - 2018 Jan 01
TA  - bioRxiv
PG  - 265116
4099  - http://biorxiv.org/content/early/2018/02/13/265116.short
4100  - http://biorxiv.org/content/early/2018/02/13/265116.full
AB  - Abstract Whole-genome bisulfite sequencing (WGBS) provides a precise measure of methylation across the genome, yet pose a challenge on identifying regions that are differentially methylated (DMRs) between different conditions. A number of methods have been proposed, mainly by performing tests on individual methylation locus and combining significant positions. While this approach can globally control locus-level error rates, in the detection of a region, these methods often result in poor estimates. We develop a DMR detecting method MethCP for WGBS data based on change point detection, which naturally segments the genome and provide region-level differential analysis. We demonstrate the performance of MethCP on a senescent cell study, an Arabidopsis dataset and a simulated dataset. We compare our method to four developed methods and we show MethCP is more accurate in detecting the complete DM region.Availability An Bioconductor package MethCP is upcoming (https://github.com/boyinggong/MethCP).