Statistical analysis of ChIP-seq data with MOSAiCS

Abstract

Chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) is invaluable for identifying genome-wide binding of transcription factors and mapping of epigenomic profiles. We present a statistical protocol for analyzing ChIP-seq data. We describe guidelines for data preprocessing and quality control and provide detailed examples of identifying ChIP-enriched regions using the Bioconductor package "mosaics." © 2013 Springer Science+Business Media New York.