Tilescope online analysis pipeline for high-density tiling microarray data 英文参考文献.docVIP

Open Access So are 2007ZhangetVoal.lumeftw8, Issue 5, Article R81 Tilescope: online analysis pipeline for high-density tiling microarray data Zhengdong D Zhang*, Joel Rozowsky*, Hugo YK Lam?, Jiang Du?, Michael Snyder§ and Mark Gerstein*?? Addresses: *Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA. ?Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06520, USA. ?Department of Computer Science, Yale University, New Haven, CT 06520, USA. §Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT 06520, USA. Correspondence: Mark Gerstein. Email: zdzmg@ Published: 14 May 2007 Received: 7 August 2006 Revised: 27 October 2006 Accepted: 14 May 2007 Genome Biology 2007, 8:R81 (doi:10.1186/gb-2007-8-5-r81) The electronic version of this article is the complete one and can be found online at /2007/8/5/R81 ? 2007 Zhang et al; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. TilingpTilmicroarrayes ope is a datafully analysisintegratetoold and automated new data-processing pipeline for analyzing high-density tiling-array data./p Abstract We developed Tilescope, a fully integrated data processing pipeline for analyzing high-density tiling- array data . In a completely automated fashion, Tilescope will normalize signals between channels and across arrays, combine replicate experiments, score each array element, and identify genomic features. The program is designed with a modular, three-tiered architecture, facilitating parallelism, and a graphic user-friendly interface, presenting results in an organized web page, downloadable for further analysis. Rationale arrays are not amenabl