Sequence analysis of chromatin immunoprecipitation data for factors
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SeqAnChIPTF_EFKM_1115-1.pdf
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Author(s)
MacIsaac, Kenzie Daniel
Fraenkel, Ernest
Date Issued
January 2010
Journal
Computational Biology of Transcription Factor Binding
Publisher
Springer Science + Business Media
Citation
MacIsaac, Kenzie D., and Ernest Fraenkel. “Sequence Analysis of Chromatin Immunoprecipitation Data for Transcription Factors.” Chapter 11 of Computational Biology of Transcription Factor Binding. Ed. Istvan Ladunga. Totowa, NJ: Humana Press, 2010. 179–193. (Methods in Molecular Biology ; Vol. 674)
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Author's final manuscript
Abstract
Chromatin immunoprecipitation (ChIP) experiments allow the location of transcription factors to be determined across the genome. Subsequent analysis of the sequences of the identified regions allows binding to be localized at a higher resolution than can be achieved by current high-throughput experiments without sequence analysis and may provide important insight into the regulatory programs enacted by the protein of interest. In this chapter we review the tools, workflow, and common pitfalls of such analyses and recommend strategies for effective motif discovery from these data.
MIT Department
Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory
Massachusetts Institute of Technology. Department of Biological Engineering
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Creative Commons Attribution-Noncommercial-Share Alike 3.0
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DOI of Published Version
https://doi.org/10.1007/978-1-60761-854-6_11
