Open AccessUsing MACS to Identify Peaks from ChIP‐Seq Data
Author(s) -
Feng Jianxing,
Liu Tao,
Zhang Yong
Publication year - 2011
Publication title -
current protocols in bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.535
H-Index - 57
eISSN - 1934-340X
pISSN - 1934-3396
DOI - 10.1002/0471250953.bi0214s34
Subject(s) - chip , computer science , telecommunications
Model‐based Analysis of ChIP‐Seq (MACS) is a command‐line tool designed by X. Shirley Liu and colleagues to analyze data generated by ChIP‐Seq experiments in eukaryotes, especially mammals. MACS can be used to identify transcription factor binding sites and histone modification–enriched regions if the ChIP‐Seq data, with or without control samples, are given. This unit describes two basic protocols that provide detailed information on how to use MACS to identify either the binding sites of a transcription factor or the enriched regions of a histone modification with broad peaks. Furthermore, the basic ideas for the MACS algorithm and its appropriate usage are discussed. Curr. Protoc. Bioinform . 34:2.14.1‐2.14.14. © 2011 by John Wiley & Sons, Inc.