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Profiling Open Chromatin Structure in the Ovarian Somatic Cells Using ATAC-seq

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Argonaute Proteins

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1680))

Abstract

The assay for transposase-accessible chromatin using sequencing (ATAC-seq) was recently established as a method to profile open chromatin, which overcomes the sample size limitations of the alternative methods DNase/MNase-seq. To investigate the role of Piwi in heterochromatin formation around transposable element loci, we have used ATAC-seq to examine chromatin accessibility at target transposable elements in a Drosophila cultured cell line, ovarian somatic cells (OSCs). In this chapter, we describe our method to profile open chromatin structure in OSCs using ATAC-seq.

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Acknowledgments

This work was supported by grants from the Kato Memorial Bioscience Foundation to K.M., and Grants-in-Aid for Scientific Research from the Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT) to Y.W.I. and H.S.

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Authors and Affiliations

  1. Department of Molecular Biology, Keio University School of Medicine, 35 Shinanomachi Shinjuku-ku, Tokyo, 160-8582, Japan

    Kensaku Murano, Yuka W. Iwasaki & Haruhiko Siomi

Authors
  1. Kensaku Murano
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  2. Yuka W. Iwasaki
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  3. Haruhiko Siomi
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Corresponding author

Correspondence to Haruhiko Siomi .

Editor information

Editors and Affiliations

  1. Temasek Lifesciences Laboratory, National University of Singapore, Singapore, Singapore

    Katsutomo Okamura

  2. Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio, USA

    Kotaro Nakanishi

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Murano, K., Iwasaki, Y.W., Siomi, H. (2018). Profiling Open Chromatin Structure in the Ovarian Somatic Cells Using ATAC-seq. In: Okamura, K., Nakanishi, K. (eds) Argonaute Proteins. Methods in Molecular Biology, vol 1680. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7339-2_11

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  • DOI: https://doi.org/10.1007/978-1-4939-7339-2_11

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7338-5

  • Online ISBN: 978-1-4939-7339-2

  • eBook Packages: Springer Protocols

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