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ChIP-seq for the Identification of Functional Elements in the Human Genome

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Promoter Associated RNA

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1543))

Abstract

Functional elements in the genome express their function through physical association with particular proteins: transcription factors, components of the transcription machinery, specific histone modifications, and others. The genome-wide characterization of the protein-DNA interaction landscape of these proteins is thus a key approach toward the identification of candidate genomic regulatory regions. ChIP-seq (Chromatin Immunoprecipitation coupled with high-throughput sequencing) has emerged as the primary experimental methods for carrying out this task. Here, the ChIP-seq protocol is described together with some of the most important considerations for applying it in practice.

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Acknowledgments

The author wishes to thank members of the Barbara Wold and Richard Myers labs and of the ENCODE Consortium for many helpful discussions, and Gilberto DeSalvo and Matthew D. Smalley for critical reading of the manuscript.

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Authors and Affiliations

  1. Department of Biology, Indiana University, Bloomington, IN, 47405, USA

    Georgi K. Marinov

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  1. Georgi K. Marinov
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Correspondence to Georgi K. Marinov .

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Editors and Affiliations

  1. Experimental Therapeutics Group, Institute of Oncology Research, Bellinzona, Switzerland

    Sara Napoli

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Marinov, G.K. (2017). ChIP-seq for the Identification of Functional Elements in the Human Genome. In: Napoli, S. (eds) Promoter Associated RNA. Methods in Molecular Biology, vol 1543. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-6716-2_1

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  • DOI: https://doi.org/10.1007/978-1-4939-6716-2_1

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-6714-8

  • Online ISBN: 978-1-4939-6716-2

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