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Differential analysis of protein-DNA binding using ChIP-seq data.
In: Chromatin Immunoprecipitation. Berlin [u.a.]: Springer, 2024. 63-89 (Methods Mol. Biol. ; 2846)
Chromatin immunoprecipitation in combination with next-generation sequencing (ChIP-Seq) allows probing of protein-DNA binding in a rapid and genome-wide fashion. Herein we describe the required steps to preprocess ChIP-Seq data and to analyze the differential binding of proteins to DNA for perturbation experiments. In these experiments, different conditions are compared to find the underlying biological mechanisms caused by the stimulus or treatment. In addition, we provide a sample analysis using the steps outlined in the chapter.
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Publication type
Article: Edited volume or book chapter
Keywords
Diffbind ; Differential Chip-seq Analysis ; Chip-seq
ISSN (print) / ISBN
1064-3745
e-ISSN
1940-6029
Book Volume Title
Chromatin Immunoprecipitation
Journal
Methods in Molecular Biology
Quellenangaben
Volume: 2846,
Pages: 63-89
Publisher
Springer
Publishing Place
Berlin [u.a.]
Non-patent literature
Publications
Reviewing status
Peer reviewed
Institute(s)
CF Genomics (CF-GEN)
Institute of Computational Biology (ICB)
Institute of Computational Biology (ICB)