CrossChip: a system supporting comparative analysis of different generations of Affymetrix arrays | Zendy

Sek Won Kong | Zendy; KyuBaek Hwang | Zendy; Richard D. Kim | Zendy; B.-T. Zhang | Zendy; Steven A. Greenberg | Zendy; Isaac S. Kohane | Zendy; Peter J. Park | Zendy

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CrossChip: a system supporting comparative analysis of different generations of Affymetrix arrays

Author(s) -

Sek Won Kong,

KyuBaek Hwang,

Richard D. Kim,

B.-T. Zhang,

Steven A. Greenberg,

Isaac S. Kohane,

Peter J. Park

Publication year - 2005

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bti288

Subject(s) - usable , upload , computer science , data mining , set (abstract data type) , computational biology , biology , world wide web , programming language

To increase compatibility between different generations of Affymetrix GeneChip arrays, we propose a method of filtering probes based on their sequences. Our method is implemented as a web-based service for downloading necessary materials for converting the raw data files (*.CEL) for comparative analysis. The user can specify the appropriate level of filtering by setting the criteria for the minimum overlap length between probe sequences and the minimum number of usable probe pairs per probe set. Our website supports a within-species comparison for human and mouse GeneChip arrays.

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