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Open Access Software

Tilescope: online analysis pipeline for high-density tiling microarray data

Zhengdong D Zhang1, Joel Rozowsky1, Hugo YK Lam2, Jiang Du3, Michael Snyder4 and Mark Gerstein123*

Author Affiliations

1 Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA

2 Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06520, USA

3 Department of Computer Science, Yale University, New Haven, CT 06520, USA

4 Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT 06520, USA

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Genome Biology 2007, 8:R81  doi:10.1186/gb-2007-8-5-r81

Published: 14 May 2007

Abstract

We developed Tilescope, a fully integrated data processing pipeline for analyzing high-density tiling-array data http://tilescope.gersteinlab.org webcite. 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.