Genome-wide analysis of transcription factor-binding sites in skeletal muscle cells using ChIP-seq

Chung Il An, Nobuko Hagiwara

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

Transcriptional regulation of gene expression constitutes a fundamental mechanism of many developmental processes. Therefore, identification and characterization of binding sites of transcription factors are important for uncovering the mechanisms of a particular developmental process. Here, we describe detailed procedures for genome-wide analysis of binding sites of a transcription factor involved in the fiber-type differentiation of skeletal muscle. By conducting ChIP-seq followed by a series of downstream analyses, in-depth information on binding sites of transcription factors can be obtained in a genome-wide manner.

Original languageEnglish (US)
Title of host publicationMethods in Molecular Biology
Pages51-64
Number of pages14
Volume1067
DOIs
StatePublished - 2013

Publication series

NameMethods in Molecular Biology
Volume1067
ISSN (Print)10643745

Fingerprint

Muscle Cells
Skeletal Muscle
Transcription Factors
Binding Sites
Genome
Skeletal Muscle Fibers
Gene Expression Regulation

Keywords

  • Alignment
  • ChIP-seq
  • Library preparation
  • Motif discovery
  • Peak calling
  • Primary myotubes
  • Skeletal muscle differentiation
  • Sox6

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

Cite this

An, C. I., & Hagiwara, N. (2013). Genome-wide analysis of transcription factor-binding sites in skeletal muscle cells using ChIP-seq. In Methods in Molecular Biology (Vol. 1067, pp. 51-64). (Methods in Molecular Biology; Vol. 1067). https://doi.org/10.1007/978-1-62703-607-8_4

Genome-wide analysis of transcription factor-binding sites in skeletal muscle cells using ChIP-seq. / An, Chung Il; Hagiwara, Nobuko.

Methods in Molecular Biology. Vol. 1067 2013. p. 51-64 (Methods in Molecular Biology; Vol. 1067).

Research output: Chapter in Book/Report/Conference proceedingChapter

An, CI & Hagiwara, N 2013, Genome-wide analysis of transcription factor-binding sites in skeletal muscle cells using ChIP-seq. in Methods in Molecular Biology. vol. 1067, Methods in Molecular Biology, vol. 1067, pp. 51-64. https://doi.org/10.1007/978-1-62703-607-8_4
An, Chung Il ; Hagiwara, Nobuko. / Genome-wide analysis of transcription factor-binding sites in skeletal muscle cells using ChIP-seq. Methods in Molecular Biology. Vol. 1067 2013. pp. 51-64 (Methods in Molecular Biology).
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