期刊
METHODS
卷 86, 期 -, 页码 80-88出版社
ACADEMIC PRESS INC ELSEVIER SCIENCE
DOI: 10.1016/j.ymeth.2015.05.022
关键词
ChIP-seq; Bacterial regulons; Transcriptional regulation; Genome-wide analysis; Bioinformatics analysis of genomic data; Systems biology; Transcription factor binding sites
资金
- NIH - United States [GM045844]
- UW-Madison NIH - United States Chemistry Biology Interface Training Grant [T32GM008505]
- DOE Great Lakes Bioenergy Research Center - United States (DOE Office of Science) [DE-FC02-07ER64494]
Chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) is a powerful method that identifies protein-DNA binding sites in vivo. Recent studies have illustrated the value of ChIP-seq in studying transcription factor binding in various bacterial species under a variety of growth conditions. These results show that in addition to identifying binding sites, correlation of ChIP-seq data with expression data can reveal important information about bacterial regulons and regulatory networks. In this chapter, we provide an overview of the current state of knowledge about ChIP-seq methodology in bacteria, from sample preparation to raw data analysis. We also describe visualization and various bioinformatic analyses of processed ChIP-seq data. (C) 2015 Elsevier Inc. All rights reserved.
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