Protocol

Chromatin Immunoprecipitation Assays

Volume 567 of the series Methods in Molecular Biology pp 59-74

Date:

μChIP: Chromatin Immunoprecipitation for Small Cell Numbers

  • John Arne DahlAffiliated withDepartment of Biochemistry, Institute of Basic Medical Sciences, University of Oslo
  • , Philippe CollasAffiliated withDepartment of Biochemistry, Institute of Basic Medical Sciences, University of Oslo

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Abstract

Chromatin immunoprecipitation (ChIP) is a technique of choice for studying protein–DNA interactions. ChIP has been used for mapping the location of modified histones on DNA, often in relation to transcription or differentiation. Conventional ChIP protocols, however, require large number of cells, which limits the applicability of ChIP to rare cell samples. ChIP assays for small cell numbers (in the range of 10,000–100,000) have been recently reported; however, these remain lengthy. Our laboratory has elaborated fast ChIP assays suitable for small cell numbers (100–100,000) and for the immunoprecipitation of histone proteins or transcription factors under cross-linking conditions. We describe here a rapid micro (μ)ChIP assay suited for multiple parallel ChIPs from a single chromatin batch from 1,000 cells. The assay is also applicable to a single immunoprecipitation from 100 cells.

Key Words

Chromatin immunoprecipitation ChIP histone acetylation methylation epigenetics