Modeling and analysis of ChIP-chip experiments.
Chromatin immunoprecipitation on microarrays, also known as ChIP-chip, is a popular technique for genome-wide localization of DNA-binding proteins. However, the high density (several million genomic sequences for small eukaryote genomes) and the high noise-to-signal ratio of microarrays make the analysis of ChIP-chip data very challenging. In this chapter, we review some of the issues involved in the analysis of ChIP-chip data and present a few statistical methods that can be used to overcome these issues and improve the detection of DNA-protein binding sites.
Gottardo
Raphael
R
Department of Statistics, University of British Columbia, Vancouver, BC, Canada.
D000465:Algorithms; D000818:Animals; D047369:Chromatin Immunoprecipitation / Q000379:methods*; D006801:Humans; D008954:Models, Biological; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012107:Research Design; D012984:Software