tailieunhanh - Báo cáo y học: "ChIPOTle: a user-friendly tool for the analysis of ChIP-chip data"

Tuyển tập các báo cáo nghiên cứu về y học được đăng trên tạp chí y học Wertheim cung cấp cho các bạn kiến thức về ngành y đề tài: ChIPOTle: a user-friendly tool for the analysis of ChIP-chip data. | Software Open Access ChlPOTle a user-friendly tool for the analysis of ChIP-chip data Michael J Buck Andrew B Nobek and Jason D Lieb Addresses Department of Biology and Carolina Center for Genome Sciences CB 3280 202 Fordham Hall University of North Carolina at Chapel Hill Chapel Hill NC 27599-3280 USA. ÝDepartment of Statistics University of North Carolina at Chapel Hill Chapel Hill NC 275993260 USA. Correspondence Jason D Lieb. E-mail jlieb@ Published 19 October 2005 Genome Biology 2005 6 R97 doi 186 gb-2005-6-1 1-r97 The electronic version of this article is the complete one and can be found online at http 2005 6 11 R97 Received 7 June 2005 Revised 2 August 2005 Accepted 22 September 2005 2005 Buck et al. licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License http licenses by which permits unrestricted use distribution and reproduction in any medium provided the original work is properly cited. Abstract ChlPOTle Chromatin ImmunoPrecipitation On Tiled arrays takes advantage of two unique properties of ChlP-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 ChlPOTle uses a sliding window approach that yields improvements in the identification of bona fide sites of protein-DNA interaction. Rationale Interactions between proteins and DNA facilitate and regulate many basic cellular functions including transcription DNA replication recombination and DNA repair. For example the process of transcription is regulated by a class of proteins referred to as transcription factors which often bind to specific DNA sequences upstream of gene coding regions. This control mechanism allows cells to respond to .