ChIPOTle: a user-friendly tool for the analysis of ChIP-chip data.
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.
Buck
Michael J
MJ
Department of Biology, Carolina Center for Genome Sciences, CB 3280, University of North Carolina, Chapel Hill, NC 27599-3280, USA. mjbuck@bio.unc.edu
Nobel
Andrew B
AB
Lieb
Jason D
JD
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