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1: Genome Biol. 2005;6(11):R97. Epub 2005 Oct 19.Click here to read Click here to read Links

ChIPOTle: a user-friendly tool for the analysis of ChIP-chip data.

Buck MJ, Nobel AB, Lieb JD.

Department of Biology, Carolina Center for Genome Sciences, CB 3280, University of North Carolina, Chapel Hill, NC 27599-3280, USA. mjbuck@bio.unc.edu

ChIPOTle (Chromatin ImmunoPrecipitation On Tiled arrays) takes advantage of two unique properties of ChIP-chip data: the single-tailed nature of the data, caused by specific enrichment but not specific depletion of genomic fragments; and the predictable enrichment of DNA fragments adjacent to sites of direct protein-DNA interaction. Implemented as a Microsoft Excel macro written in Visual Basic, ChIPOTle uses a sliding window approach that yields improvements in the identification of bona fide sites of protein-DNA interaction.

PMID: 16277752 [PubMed - indexed for MEDLINE]

PMCID: PMC1297653