Chromatin Immunoprecipitation and High-Throughput Sequencing (ChIP-Seq): Tips and Tricks Regarding the Laboratory Protocol and Initial Downstream Data Analysis

Methods in Molecular Biology
Darren K PattenLuca Magnani

Abstract

Chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-seq) has become an essential tool for epigenetic scientists. ChIP-seq is used to map protein-DNA interactions and epigenetic marks such as histone modifications at the genome-wide level. Here we describe a complete ChIP-seq laboratory protocol (tailored toward processing tissue samples as well as cell lines) and the bioinformatic pipelines utilized for handling raw sequencing files through to peak calling.

Related Concepts

Metazoa
cDNA Library
Sequence Determinations, DNA
Genomics
Chromatin Immunoprecipitation
High-Throughput Nucleotide Sequencing
Genome
Histones
Laboratory
Cell Line, Tumor

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