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Bioinformatics Advance Access published online on November 30, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl602
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© 2006 The Author(s)
Received October 23, 2006
Revised November 19, 2006
Accepted November 20, 2006

Applications note

Prophet, a web-based tool for class prediction using microarray data

Ignacio Medina 1, David Montaner 2, Joaquín Tárraga 2, and Joaquín Dopazo 2 *

1 Department of Bioinformatics, Centro de Investigación Príncipe Felipe (CIPF), Valencia, E46013, Spain
2 Department of Bioinformatics, Centro de Investigación Príncipe Felipe (CIPF), Valencia, E46013, Spain; Functional Genomics Node, (INB), Centro de Investigación Príncipe Felipe (CIPF), Valencia, E46013, Spain


  Abstract

Sample classification and class prediction is the aim of many gene expression studies. We present a web-based application, Prophet, that builds prediction rules and allows using them for further sample classification. Prophet automatically chooses the best classifier, along with the optimal selection of genes, using a strategy that renders unbiased cross-validated errors. Prophet is linked to different microarray data analysis modules, and includes a unique feature: the possibility of performing the functional interpretation of the molecular signature found.

Availability: Prophet can be found at the URL http://prophet.bioinfo.cipf.es/ or within the GEPAS package at http://www.gepas.org.

Associate Editor: Chris Stoeckert
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