Nonparametric Tests for Differential Histone Enrichment with ChIP-Seq Data.

ABSTRACT: Chromatin immunoprecipitation sequencing (ChIP-seq) is a powerful method for analyzing protein interactions with DNA. It can be applied to identify the binding sites of transcription factors (TFs) and genomic landscape of histone modification marks (HMs). Previous research has largely focused on developing peak-calling procedures to detect the binding sites for TFs. However, these procedures may fail when applied to ChIP-seq data of HMs, which have diffuse signals and multiple local peaks. In addition, it is important to identify genes with differential histone enrichment regions between two experimental conditions, such as different cellular states or different time points. Parametric methods based on Poisson/negative binomial distribution have been proposed to address this differential e

SUBMITTER: Wu Q 

PROVIDER: S-EPMC4310510 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature