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Assessment of protein dynamics and DNA repair following generation of DNA double-strand breaks at defined genomic sites.

Publication ,  Journal Article
Berkovich, E; Monnat, RJ; Kastan, MB
Published in: Nat Protoc
2008

The formation of protein aggregates (foci) at sites of DNA double-strand breaks (DSBs) is mainly studied by immunostaining and is hence limited by the low resolution of light microscopy and the availability of appropriate and selective antibodies. Here, we describe a system using enzymatic creation of site-specific DNA DSBs within the human genome combined with chromatin immunoprecipitation (ChIP) that enables molecular probing of a DSB. Following induction of the I-PpoI enzyme and generation of DSBs, cellular DNA and proteins are crosslinked and analyzed by ChIP for specific proteins at the site of the break. The system allows the direct detection of protein and chromatin dynamics at the site of the break with high resolution, as well as direct measurement of DNA repair defects in human cells. Starting with fragmented chromatin, results can be achieved in 2-3 d.

Duke Scholars

Published In

Nat Protoc

DOI

EISSN

1750-2799

Publication Date

2008

Volume

3

Issue

5

Start / End Page

915 / 922

Location

England

Related Subject Headings

  • Molecular Probe Techniques
  • Humans
  • Genome, Human
  • Genetic Vectors
  • Endodeoxyribonucleases
  • DNA Repair
  • DNA Breaks, Double-Stranded
  • Chromatin Immunoprecipitation
  • Bioinformatics
  • 11 Medical and Health Sciences
 

Citation

APA
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ICMJE
MLA
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Berkovich, E., Monnat, R. J., & Kastan, M. B. (2008). Assessment of protein dynamics and DNA repair following generation of DNA double-strand breaks at defined genomic sites. Nat Protoc, 3(5), 915–922. https://doi.org/10.1038/nprot.2008.54
Berkovich, Elijahu, Raymond J. Monnat, and Michael B. Kastan. “Assessment of protein dynamics and DNA repair following generation of DNA double-strand breaks at defined genomic sites.Nat Protoc 3, no. 5 (2008): 915–22. https://doi.org/10.1038/nprot.2008.54.
Berkovich, Elijahu, et al. “Assessment of protein dynamics and DNA repair following generation of DNA double-strand breaks at defined genomic sites.Nat Protoc, vol. 3, no. 5, 2008, pp. 915–22. Pubmed, doi:10.1038/nprot.2008.54.

Published In

Nat Protoc

DOI

EISSN

1750-2799

Publication Date

2008

Volume

3

Issue

5

Start / End Page

915 / 922

Location

England

Related Subject Headings

  • Molecular Probe Techniques
  • Humans
  • Genome, Human
  • Genetic Vectors
  • Endodeoxyribonucleases
  • DNA Repair
  • DNA Breaks, Double-Stranded
  • Chromatin Immunoprecipitation
  • Bioinformatics
  • 11 Medical and Health Sciences