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Nat Methods. 2008 Apr;5(4):307-9. doi: 10.1038/nmeth.1194. Epub 2008 Mar 16.

Genome-wide mapping of allele-specific protein-DNA interactions in human cells.

Author information

1
Ludwig Institute for Cancer Research, University of California, San Diego, 9500 Gilman Ave., La Jolla, California 92037, USA.

Abstract

We describe a high-throughput method, named ChIP-SNP, for the identification of allele-specific protein-DNA interactions throughout the human genome. ChIP-SNP combines chromatin immunoprecipitation (ChIP) with whole-genome single nucleotide polymorphism (SNP) genotyping microarray analysis. We demonstrated that it can be used to accurately identify allele-specific binding of RNA polymerase II (RNAP) in the human fibroblast genome, uncovering imprinted genes and other allele-specific binding events. ChIP-SNP will facilitate the study of mechanisms of allele-specific gene expression.

PMID:
18345007
DOI:
10.1038/nmeth.1194
[Indexed for MEDLINE]

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