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Plant Physiology 136:2621-2632 (2004)
© 2004 American Society of Plant Biologists

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BIOINFORMATICS

GENEVESTIGATOR. Arabidopsis Microarray Database and Analysis Toolbox1,[w]

Philip Zimmermann2, Matthias Hirsch-Hoffmann2, Lars Hennig and Wilhelm Gruissem*

Institute of Plant Sciences, Swiss Federal Institute of Technology and Zurich-Basel Plant Science Center, ETH Center, CH–8092 Zurich, Switzerland (P.Z., M.H.-H., L.H., W.G.); and Functional and Genomics Center Zurich, UNI Irchel, Y32 H52, CH–8057 Zurich, Switzerland (W.G.)

High-throughput gene expression analysis has become a frequent and powerful research tool in biology. At present, however, few software applications have been developed for biologists to query large microarray gene expression databases using a Web-browser interface. We present GENEVESTIGATOR, a database and Web-browser data mining interface for Affymetrix GeneChip data. Users can query the database to retrieve the expression patterns of individual genes throughout chosen environmental conditions, growth stages, or organs. Reversely, mining tools allow users to identify genes specifically expressed during selected stresses, growth stages, or in particular organs. Using GENEVESTIGATOR, the gene expression profiles of more than 22,000 Arabidopsis genes can be obtained, including those of 10,600 currently uncharacterized genes. The objective of this software application is to direct gene functional discovery and design of new experiments by providing plant biologists with contextual information on the expression of genes. The database and analysis toolbox is available as a community resource at https://www.genevestigator.ethz.ch.

1 This work was supported by ETH, Strategic Excellence Project 2–74213–02/TH–8/02–2, and by the Functional Genomics Center Zurich.

2 These authors contributed equally to the paper.

[w] The online version of this article contains Web-only data.

www.plantphysiol.org/cgi/doi/10.1104/pp.104.046367.

* Corresponding author; e-mail wilhelm.gruissem{at}ipw.biol.ethz.ch; fax 41–1–632–10–79.

Received May 14, 2004; returned for revision July 12, 2004; accepted July 16, 2004.




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