Publication:
Chromatin immunoprecipitation sequencing (ChIP-seq) for transcription factors and chromatin factors in Arabidopsis thaliana roots: From material collection to data analysis

Issued Date

2018-01-01

Resource Type

Chapter

ISSN

10643745

DOI

10.1007/978-1-4939-7747-5_18

Other identifier(s)

2-s2.0-85043787894

Rights

Mahidol University

Rights Holder(s)

SCOPUS

Bibliographic Citation

Methods in Molecular Biology. Vol.1761, (2018), 231-248

Suggested Citation

Sandra Cortijo, Varodom Charoensawan, François Roudier, Philip A. Wigge Chromatin immunoprecipitation sequencing (ChIP-seq) for transcription factors and chromatin factors in Arabidopsis thaliana roots: From material collection to data analysis. Methods in Molecular Biology. Vol.1761, (2018), 231-248. doi:10.1007/978-1-4939-7747-5_18 Retrieved from: https://repository.li.mahidol.ac.th/handle/20.500.14594/45318

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Title

Chromatin immunoprecipitation sequencing (ChIP-seq) for transcription factors and chromatin factors in Arabidopsis thaliana roots: From material collection to data analysis

Author(s)

Sandra Cortijo
 Varodom Charoensawan
 François Roudier
 Philip A. Wigge

Other Contributor(s)

Reproduction et Développement des Plantes
 University of Cambridge
 Mahidol University

Abstract

© 2018, Springer Science+Business Media, LLC. Chromatin immunoprecipitation combined with next-generation sequencing (ChIP-seq) is a powerful technique to investigate in vivo transcription factor (TF) binding to DNA, as well as chromatin marks. Here we provide a detailed protocol for all the key steps to perform ChIP-seq in Arabidopsis thaliana roots, also working on other A. thaliana tissues and in most non-ligneous plants. We detail all steps from material collection, fixation, chromatin preparation, immunoprecipitation, library preparation, and finally computational analysis based on a combination of publicly available tools.

Keyword(s)

Biochemistry, Genetics and Molecular Biology

Availability

URI

https://repository.li.mahidol.ac.th/handle/20.500.14594/45318

Collections

Scopus 2018