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Bioinformatics Advance Access originally published online on July 9, 2004
Bioinformatics 2004 20(18):3638-3640; doi:10.1093/bioinformatics/bth395
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Bioinformatics vol. 20 issue 18 © Oxford University Press 2004; all rights reserved.

Applications Note

SARGE: a tool for creation of putative genetic networks

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

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

Received on January 22, 2004; accepted on July 1, 2004
Advance Access Publication July 9, 2004

Summary: SARGE is a tool for creating, visualizing 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 optimization.

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

Contact: anil.wipat{at}ncl.ac.uk

* To whom correspondence should be addressed.


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