title: ChIP-Seq: Library Preparation and Sequencing.
abstract: Chromatin immunoprecipitation with massively parallel DNA sequencing (ChIP-Seq) has been used extensively to determine the genome-wide location of DNA-binding factors, such as transcription factors, posttranscriptionally modified histones, and members of the transcription complex, to assess regulatory input, epigenetic modifications, and transcriptional activity, respectively. Here we describe methods to isolate chromatin from tissues, immunoprecipitate DNA bound to a protein of interest, and perform next-generation sequencing to identify a genome-wide DNA-binding pattern.
authors.affiliation: Department of Genetics, and Institute for Diabetes, Obesity and Metabolism, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.
authors.forename: Karyn L
authors.initials: KL
authors.lastname: Sheaffer
authors.affiliation: Department of Genetics, and Institute for Diabetes, Obesity and Metabolism, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA. jschug@upenn.edu.
authors.forename: Jonathan
authors.initials: J
authors.lastname: Schug
mesh_terms: D000818:Animals; D002843:Chromatin / Q000235:genetics / Q000302:isolation & purification* / Q000378:metabolism; D047369:Chromatin Immunoprecipitation / Q000379:methods*; D004247:DNA / Q000235:genetics / Q000302:isolation & purification* / Q000378:metabolism; D004268:DNA-Binding Proteins / Q000235:genetics / Q000302:isolation & purification* / Q000378:metabolism; D015723:Gene Library; D016678:Genome; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D006801:Humans; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D002843:Chromatin; D004268:DNA-Binding Proteins; D004247:DNA
keywords: Chromatin immunoprecipitation; DNA binding; Next-generation sequencing