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Bioinformatics Advance Access originally published online on November 30, 2006
Bioinformatics 2007 23(3):390-391; doi:10.1093/bioinformatics/btl602
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© 2006 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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

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

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

*To whom correspondence should be addressed.


  Abstract

Sample classification and class prediction is the aim of many gene expression studies. We present a web-based application, Prophet, which 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/

Contact: jdopazo{at}cipf.es

Supplementary information: http://gepas.bioinfo.cipf.es/tutorial/prophet.html

Associate Editor: Chris Stoeckert

Received on October 23, 2006; revised on November 19, 2006; accepted on November 20, 2006

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