ChIPOTle: a user-friendly tool for the analysis of ChIP-chip data
Jason D. Lieb, Michael Buck, Andrew B. Nobel · Carolina Digital Repository (University of North Carolina at Chapel Hill) · 2019
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.