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Bioinformatics core workflow for ChIP-seq data analysis.
In: Chromatin Immunoprecipitation. Berlin [u.a.]: Springer, 2024. 47-62 (Methods Mol. Biol. ; 2846)
Chromatin immunoprecipitation (ChIP) followed by next-generation sequencing (-seq) has been the most common genomics method for studying DNA-protein interactions in the last decade. ChIP-seq technology became standard both experimentally and computationally. This chapter presents a core workflow that covers data processing and initial analytical steps of ChIP-seq data. We provide a step-by-step protocol of the commands as well as a fully assembled Snakemake workflow. Along the protocol, we discuss key tool parameters, quality control, output reports, and preliminary results.
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Publikationstyp
Artikel: Sammelbandbeitrag/Buchkapitel
Schlagwörter
Automated Workflow ; Chip-seq ; Chromatin Biology ; Quality Control ; Reproducibility ; Step-by-step Protocol
ISSN (print) / ISBN
1064-3745
e-ISSN
1940-6029
Bandtitel
Chromatin Immunoprecipitation
Zeitschrift
Methods in Molecular Biology
Quellenangaben
Band: 2846,
Seiten: 47-62
Verlag
Springer
Verlagsort
Berlin [u.a.]
Nichtpatentliteratur
Publikationen
Begutachtungsstatus
Peer reviewed
Institut(e)
Institute of Epigenetics and Stem Cells (IES)