Chapter title |
Characterization of In Vivo DNA-Binding Events of Plant Transcription Factors by ChIP-seq: Experimental Protocol and Computational Analysis.
|
---|---|
Chapter number | 5 |
Book title |
Plant Functional Genomics
|
Published in |
Methods in molecular biology, January 2015
|
DOI | 10.1007/978-1-4939-2444-8_5 |
Pubmed ID | |
Book ISBNs |
978-1-4939-2443-1, 978-1-4939-2444-8
|
Authors |
Hilda van Mourik, Jose M Muiño, Alice Pajoro, Gerco C Angenent, Kerstin Kaufmann, Jose M. Muiño, Gerco C. Angenent, Mourik, Hilda van, Muiño, Jose M., Pajoro, Alice, Angenent, Gerco C., Kaufmann, Kerstin |
Abstract |
Chromatin immunoprecipitation followed by next-generation sequencing (ChIP-seq) is a powerful technique for genome-wide identification of in vivo binding sites of DNA-binding proteins. The technique had been used to study many DNA-binding proteins in a broad variety of species. The basis of the ChIP-seq technique is the ability to covalently cross-link DNA and proteins that are located in very close proximity. This allows the use of an antibody against the (tagged) protein of interest to specifically enrich DNA-fragments bound by this protein. ChIP-seq can be performed using antibodies against the native protein or against tagged proteins. Using a specific antibody against a tag to immunoprecipitate tagged proteins eliminates the need for a specific antibody against the native protein and allows more experimental flexibility. In this chapter we present a complete workflow for experimental procedure and bioinformatic analysis that allows wet-lab biologists to perform and analyze ChIP-seq experiments. |
X Demographics
Geographical breakdown
Country | Count | As % |
---|---|---|
France | 1 | 100% |
Demographic breakdown
Type | Count | As % |
---|---|---|
Members of the public | 1 | 100% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Unknown | 30 | 100% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Student > Ph. D. Student | 11 | 37% |
Researcher | 7 | 23% |
Student > Bachelor | 3 | 10% |
Student > Master | 3 | 10% |
Professor > Associate Professor | 2 | 7% |
Other | 1 | 3% |
Unknown | 3 | 10% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 13 | 43% |
Biochemistry, Genetics and Molecular Biology | 8 | 27% |
Computer Science | 2 | 7% |
Unknown | 7 | 23% |