Chapter title |
Mapping Transcription Regulatory Networks with ChIP-seq and RNA-seq.
|
---|---|
Chapter number | 7 |
Book title |
Prokaryotic Systems Biology
|
Published in |
Advances in experimental medicine and biology, January 2015
|
DOI | 10.1007/978-3-319-23603-2_7 |
Pubmed ID | |
Book ISBNs |
978-3-31-923602-5, 978-3-31-923603-2
|
Authors |
Wade, Joseph T, Joseph T. Wade |
Abstract |
Bacterial genomes encode numerous transcription factors, DNA-binding proteins that regulate transcription initiation. Identifying the regulatory targets of transcription factors is a major challenge of systems biology. Here I describe the use of two genome-scale approaches, ChIP-seq and RNA-seq, that are used to map transcription factor regulons. ChIP-seq maps the association of transcription factors with DNA, and RNA-seq determines changes in RNA levels associated with transcription factor perturbation. I discuss the strengths and weaknesses of these and related approaches, and I describe how ChIP-seq and RNA-seq can be combined to map individual transcription factor regulons and entire regulatory networks. |
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