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ChIP-Seq: Library Preparation and Sequencing

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Long Non-Coding RNAs

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1402))

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.

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Author information

Authors and Affiliations

  1. Department of Genetics, and Institute for Diabetes, Obesity and Metabolism, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA

    Karyn L. Sheaffer & Jonathan Schug

Authors
  1. Karyn L. Sheaffer
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  2. Jonathan Schug
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Corresponding author

Correspondence to Jonathan Schug .

Editor information

Editors and Affiliations

  1. School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA

    Yi Feng

  2. School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA

    Lin Zhang

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© 2016 Springer Science+Business Media New York

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Sheaffer, K.L., Schug, J. (2016). ChIP-Seq: Library Preparation and Sequencing. In: Feng, Y., Zhang, L. (eds) Long Non-Coding RNAs. Methods in Molecular Biology, vol 1402. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-3378-5_9

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  • DOI: https://doi.org/10.1007/978-1-4939-3378-5_9

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-3376-1

  • Online ISBN: 978-1-4939-3378-5

  • eBook Packages: Springer Protocols

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