Protocol

Identifying Regions Enriched in a ChIP-seq Data Set (Peak Finding)

  1. Zhiping Weng

Abstract

This protocol demonstrates how to use MACS software to call peaks in a ChIP-seq data set. MACS is one of the most widely used peak-calling programs. The protocol describes how to run MACS in a UNIX environment and on Galaxy and how to extract the sequences of ±50 bp around the summits of the 500 MACS peaks with the most significant P values.

Footnotes

  • From the Molecular Cloning collection, edited by Michael R. Green and Joseph Sambrook.

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This Article

  1. Published in Advance August 29, 2016, doi: 10.1101/pdb.prot093187 Cold Spring Harb Protoc © 2017 Cold Spring Harbor Laboratory Press
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