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Bioinformatics Advance Access originally published online on February 12, 2004
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Bioinformatics 20(9) © Oxford University Press 2004; all rights reserved.

Applications Note

NetAffx Gene Ontology Mining Tool: a visual approach for microarray data analysis

Jill Cheng *, Shaw Sun , Adam Tracy , Earl Hubbell , Joseph Morris , Venu Valmeekam , Andrew Kimbrough , Melissa S. Cline , Guoying Liu , Ron Shigeta , David Kulp and Michael A. Siani-Rose

Affymetrix Corporation, Bioinformatics, 6550 Vallejo Street, Suite 100, Emeryville, CA 94608, USA

Received on July 10, 2003; revised on October 29, 2003; accepted on December 22, 2003
Advance Access Publication February 12, 2004

Summary: The NetAffx Gene Ontology (GO) Mining Tool is a web-based, interactive tool that permits traversal of the GO graph in the context of microarray data. It accepts a list of Affymetrix probe sets and renders a GO graph as a heat map colored according to significance measurements. The rendered graph is interactive, with nodes linked to public web sites and to lists of the relevant probe sets. The GO Mining Tool provides visualization combining biological annotation with expression data, encompassing thousands of genes in one interactive view.

Availability: GO Mining Tool is freely available at http://www.affymetrix.com/analysis/query/go_analysis.affx

Contact: jill_cheng{at}affymetrix.com

* To whom correspondence should be addressed.


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