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Bioinformatics Advance Access published online on July 9, 2004
Bioinformatics, doi:10.1093/bioinformatics/bth395
Bioinformatics © Oxford University Press 2004; all rights reserved
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Received January 22, 2004
Revised July 1, 2004
Accepted July 1, 2004

Applications note

SARGE: A tool for creation of putative genetic networks

O.J. Shaw 1, C. Harwood 2, L.J. Steggles 1, A. Wipat 1*

1 School of Computing Science, University of Newcastle upon Tyne, United Kingdom, NE1 7RU
2 School of Cell and Molecular Biosciences, Medical School, Newcastle University, Framlington Place, Newcastle upon Tyne, NE2 4HH

* To whom correspondence should be addressed. E-mail: anil.wipat{at}ncl.ac.uk.


  Abstract

Summary: SARGE is a tool for creating, visualising and manipulating a putative genetic network from time series microarray data. The tool assigns potential edges through time lagged correlation, incorporates a clustering mechanism, an interactive visual graph representation and employs simulated annealing for network optimisation.

Availability: The application is available as a .jar file from http://www.bioinformatics.cs.ncl.ac.uk/sarge/index.html


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