ChIP-Seq Strategy to Identify Z-DNA-Forming Sequences in the Human Genome

Tae Young Roh

doi:10.1007/978-1-0716-3084-6_12

ChIP-Seq Strategy to Identify Z-DNA-Forming Sequences in the Human Genome

Tae Young Roh

Department of Life Science

Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

Abstract

Different from the canonical right-handed B-DNA, a left-handed Z-DNA forms an alternating syn- and anti-base conformations along the double-stranded helix under physiological conditions. Z-DNA structure plays a role in transcriptional regulation, chromatin remodeling, and genome stability. To understand the biological function of Z-DNA and map the genome-wide Z-DNA-forming sites (ZFSs), a ChIP-Seq strategy is applied, which is a combination of chromatin immunoprecipitation (ChIP) and high-throughput DNA sequencing analysis. Cross-linked chromatin is sheared and its fragments associated with Z-DNA-binding proteins are mapped onto the reference genome sequence. The global information of ZFSs positioning can provide a useful resource for better understanding of DNA structure-dependent biological mechanism.

Original language	English
Title of host publication	Methods in Molecular Biology
Publisher	Humana Press Inc.
Pages	167-177
Number of pages	11
DOIs	https://doi.org/10.1007/978-1-0716-3084-6_12
State	Published - 2023

Publication series

Name	Methods in Molecular Biology
Volume	2651
ISSN (Print)	1064-3745
ISSN (Electronic)	1940-6029

Bibliographical note

Funding Information:
This work was supported by the National Research Foundation of Korea (NRF-2014M3C9A3064548, NRF-2017M3C9A6047625,

Publisher Copyright:
© 2023, The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.

Keywords

ChIP-Seq
Z-DNA
Z-DNA-binding domain
Z-DNA-forming site

Access to Document

10.1007/978-1-0716-3084-6_12

Cite this

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abstract = "Different from the canonical right-handed B-DNA, a left-handed Z-DNA forms an alternating syn- and anti-base conformations along the double-stranded helix under physiological conditions. Z-DNA structure plays a role in transcriptional regulation, chromatin remodeling, and genome stability. To understand the biological function of Z-DNA and map the genome-wide Z-DNA-forming sites (ZFSs), a ChIP-Seq strategy is applied, which is a combination of chromatin immunoprecipitation (ChIP) and high-throughput DNA sequencing analysis. Cross-linked chromatin is sheared and its fragments associated with Z-DNA-binding proteins are mapped onto the reference genome sequence. The global information of ZFSs positioning can provide a useful resource for better understanding of DNA structure-dependent biological mechanism.",

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ChIP-Seq Strategy to Identify Z-DNA-Forming Sequences in the Human Genome

Abstract

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Bibliographical note

Keywords

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