All Things ChIP: ChIP-Chip, ChIP-Seq, ChIP-PCR
Published Online: 10 OCT 2011
Copyright © 2006 Wiley-VCH Verlag GmbH & Co. KGaA
Encyclopedia of Molecular Cell Biology and Molecular Medicine
How to Cite
Rizzo, J. M. and Buck, M. J. 2011. All Things ChIP: ChIP-Chip, ChIP-Seq, ChIP-PCR. Encyclopedia of Molecular Cell Biology and Molecular Medicine.
- Published Online: 10 OCT 2011
Chromatin immunoprecipitation (ChIP) has long been a valuable tool for scientists seeking to study in vivo proteinDNA interactions. Beginning with the pioneering efforts of Solomon et al., successful applications of the ChIP protocol have spanned multiple model systems across a wide breadth of biological disciplines. ChIP is a technique whereby a protein of interest is selectively immunoprecipitated from a chromatin preparation to determine the DNA sequences associated with it. While a relatively simple experiment conceptually, the ChIP protocol is notorious for the variance it can produce. Additionally, the availability of multiple assays for analyzing the protein-associated DNA that ChIP collects can confound even the most experienced researcher, particularly in choosing, designing or analyzing a given assay of ChIP DNA. The aim of this chapter is to aid the experience of a ChIP user by outlining ways to design, control and analyze ChIP experiments to enhance data quality and interpretation.
Keywords: Antigen ; Chromatin ; Chromatin immunoprecipitation (ChIP) ; ChIP-chip ; ChIP-Seq ; Epitope ; Immunoprecipitation (IP) ; IP enrichment ; Micrococcal nuclease (MNase) ; Sonication