Mapping regulatory elements by DNaseI hypersensitivity chip (DNase-Chip).

Journal Article (Journal Article)

Historically, the simplest method to robustly identify active gene regulatory elements has been enzymatic digestion of nuclear DNA by nucleases such as DNaseI. Regions of extreme chromatin accessibility to DNaseI, commonly known as DNaseI hypersensitive sites, have been repeatedly shown to be markers for all types of active cis-acting regulatory elements, including promoters, enhancers, silencers, insulators, and locus control regions. However, the original classical method, which for over 25 years relied on Southern blot, was limited to studying only small regions of the genome. Here we describe the detailed protocol for DNase-chip, a high-throughput method that allows for a targeted or genome-wide identification of cis-acting gene regulatory elements.

Full Text

Duke Authors

Cited Authors

  • Shibata, Y; Crawford, GE

Published Date

  • 2009

Published In

Volume / Issue

  • 556 /

Start / End Page

  • 177 - 190

PubMed ID

  • 19488879

International Standard Serial Number (ISSN)

  • 1064-3745

Digital Object Identifier (DOI)

  • 10.1007/978-1-60327-192-9_13


  • eng

Conference Location

  • United States