DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays.

ABSTRACT: Mapping DNase I hypersensitive sites is an accurate method of identifying the location of gene regulatory elements, including promoters, enhancers, silencers and locus control regions. Although Southern blots are the traditional method of identifying DNase I hypersensitive sites, the conventional manual method is not readily scalable to studying large chromosomal regions, much less the entire genome. Here we describe DNase-chip, an approach that can rapidly identify DNase I hypersensitive sites for any region of interest, or potentially for the entire genome, by using tiled microarrays. We used DNase-chip to identify DNase I hypersensitive sites accurately from a representative 1% of the human genome in both primary and immortalized cell types. We found that although most DNase I hypersens

SUBMITTER: Crawford GE 

PROVIDER: S-EPMC2698431 | biostudies-literature | 2006 Jul

REPOSITORIES: biostudies-literature