Program in Bioinformatics and Integrative Biology; Department of Biochemistry and Molecular Pharmacology
Bioinformatics | Computational Biology
Microarray and next-generation sequencing technologies have greatly expedited the discovery of genomic DNA that can be enriched using various biochemical methods. Chromatin immunoprecipitation (ChIP) is a general method for enriching chromatin fragments that are specifically recognized by an antibody. The resulting DNA fragments can be assayed by microarray (ChIP-chip) or sequencing (ChIP-seq). This introduction focuses on ChIP-seq data analysis. The first step of analyzing ChIP-seq data is identifying regions in the genome that are enriched in a ChIP sample; these regions are called peaks.
DOI of Published Version
Cold Spring Harb Protoc. 2016 Aug 29. doi: 10.1101/pdb.top093179. Link to article on publisher's site
Cold Spring Harbor protocols
Hung, Jui-Hung and Weng, Zhiping, "Peak-Finding Algorithms" (2016). Program in Bioinformatics and Integrative Biology Publications and Presentations. 102.