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p53 Protocols pp 227–236Cite as

ChIP Sequencing to Identify p53 Targets

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 962))

Abstract

Mutant p53 may activate target genes through the interaction of transcription factors or through histone modifications. Chromatin immunoprecipitation (ChIP) is a method commonly used to study these types of protein interactions. In order to generate a list of target genes that may be activated through this mechanism, ChIP sequencing may be used. ChIP sequencing involves the mass parallel sequencing of ChIP DNA fragments. We describe a method by which to prepare chromatin immunoprecipitation sequencing libraries and how to analyze sequencing data. In this procedure, prepared libraries have been sent to a core facility. The results have been verified using quantitative PCR.

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Author information

Authors and Affiliations

  1. Department of Integrative Life Sciences, Virginia Commonwealth University, Richmond, VA, USA

    Catherine Vaughan

  2. Department of Medicinal Chemistry, Virginia Commonwealth University, Richmond, VA, USA

    Brad Windle

  3. Department of Biochemistry, Massey Cancer Center, Department of Microbiology and Immunology, Virginia Commonwealth University, Richmond, VA, USA

    Sumitra Deb

Authors
  1. Catherine Vaughan
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  2. Brad Windle
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  3. Sumitra Deb
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Corresponding author

Correspondence to Sumitra Deb .

Editor information

Editors and Affiliations

  1. Massey Cancer Center, Department of Biochemistry, Virginia Commonwealth University, College Street 401, Richmond, 23298, Virginia, USA

    Sumitra Deb

  2. Massey Cancer Center, Department of Biochemistry, Virginia Commonwealth University, College Street 401, Richmond, 23298, Virginia, USA

    Swati Palit Deb

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© 2013 Springer Science+Business Media New York

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Vaughan, C., Windle, B., Deb, S. (2013). ChIP Sequencing to Identify p53 Targets. In: Deb, S., Deb, S. (eds) p53 Protocols. Methods in Molecular Biology, vol 962. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-62703-236-0_19

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  • DOI: https://doi.org/10.1007/978-1-62703-236-0_19

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  • Publisher Name: Humana Press, Totowa, NJ

  • Print ISBN: 978-1-62703-235-3

  • Online ISBN: 978-1-62703-236-0

  • eBook Packages: Springer Protocols

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