Chromatin Immunoprecipitation Using Microarrays

  • Mickaël Durand-Dubief
  • Karl Ekwall
Part of the Methods in Molecular Biology book series (MIMB, volume 529)


Chromatin immunoprecipitation (ChIP) is a powerful procedure to investigate the interactions between proteins and DNA. ChIP-chip combines chromatin immunoprecipitation and DNA microarray analysis to identify protein–DNA interactions that occur in vivo. This genome-wide analysis of protein–DNA association is carried out in several steps including chemical cross-linking, cell lysis, DNA fragmentation and immunoaffinity purification that allow the identification of DNA interactions and provide a powerful tool for genome-wide investigations. Immunoprecipitated DNA fragments associated with the desired protein are amplified, labelled and hybridized to DNA microarrays to detect enriched signals compared to a labelled reference sample.

Key words

Chromatin immunoprecipitation arrays affymetrix eurogentec ChIP ChIP-chip 



Our laboratory is supported by grants from the Swedish Cancer Society, Swedish Research Council (VR) M Bergvalls stiftelse, Östersjöstiftelsen and EU ‘The Epigenome’ NoE network. We thank Jenna M. Bernstein for critical reading of the manuscript.


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Copyright information

© Humana Press, a part of Springer Science+Business Media, LLC 2009

Authors and Affiliations

  • Mickaël Durand-Dubief
    • 1
  • Karl Ekwall
    • 2
  1. 1.Karolinska Institute /NOVUMSweden
  2. 2.University College SödertörnSweden

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