Mapping regulatory elements by DNaseI hypersensitivity chip (DNase-Chip).
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.
Duke Scholars
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Related Subject Headings
- Regulatory Sequences, Nucleic Acid
- Oligonucleotide Array Sequence Analysis
- Humans
- Gene Expression Regulation
- Developmental Biology
- Deoxyribonuclease I
- Chromosome Mapping
- 3404 Medicinal and biomolecular chemistry
- 3101 Biochemistry and cell biology
- 0601 Biochemistry and Cell Biology
Citation
Published In
DOI
ISSN
Publication Date
Volume
Start / End Page
Location
Related Subject Headings
- Regulatory Sequences, Nucleic Acid
- Oligonucleotide Array Sequence Analysis
- Humans
- Gene Expression Regulation
- Developmental Biology
- Deoxyribonuclease I
- Chromosome Mapping
- 3404 Medicinal and biomolecular chemistry
- 3101 Biochemistry and cell biology
- 0601 Biochemistry and Cell Biology