Identifying Regions Enriched in a ChIP-seq Data Set (Peak Finding)
Program in Bioinformatics and Integrative Biology; Department of Biochemistry and Molecular Pharmacology
Bioinformatics | Computational Biology
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.
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Citation: Cold Spring Harb Protoc. 2017 Feb 1;2017(2):pdb.prot093187. doi: 10.1101/pdb.prot093187. Link to article on publisher's site
Cold Spring Harbor protocols
Hung, Jui-Hung and Weng, Zhiping, "Identifying Regions Enriched in a ChIP-seq Data Set (Peak Finding)" (2017). Program in Bioinformatics and Integrative Biology Publications and Presentations. 105.