title: ChIPOTle: a user-friendly tool for the analysis of ChIP-chip data.
abstract: 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.
authors.affiliation: Department of Biology, Carolina Center for Genome Sciences, CB 3280, University of North Carolina, Chapel Hill, NC 27599-3280, USA. mjbuck@bio.unc.edu
authors.forename: Michael J
authors.initials: MJ
authors.lastname: Buck
authors.forename: Andrew B
authors.initials: AB
authors.lastname: Nobel
authors.forename: Jason D
authors.initials: JD
authors.lastname: Lieb
mesh_terms: D000465:Algorithms; D047369:Chromatin Immunoprecipitation; D019295:Computational Biology / Q000379:methods*; D003627:Data Interpretation, Statistical; D020411:Oligonucleotide Array Sequence Analysis; D012984:Software; D014584:User-Computer Interface