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Bioinformatics Advance Access published online on August 4, 2008
Bioinformatics, doi:10.1093/bioinformatics/btn368
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© 2008 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.

VistaClara: An expression browser plug-in for Cytoscape

Robert Kincaid 1,*, Allan Kuchinsky 1 and Michael Creech 2

1Agilent Laboratories, 5301 Stevens Creek Blvd., Santa Clara, California 95051, USA
2Blue Oak Software, 1734 Austin Ave, Los Altos, California 94024, USA

*To whom correspondence should be addressed. Dr. Robert Kincaid, E-mail: robert_kincaid{at}agilent.com


  Abstract

Summary: VistaClara is a plug-in for Cytoscape which provides a more flexible means to visualize gene and protein expression within a network context. An extended attribute browser is provided in the form of a graphical and interactive permutation matrix that resembles the heat map displays popular in gene expression analysis. This extended browser permits a variety of display options and interactions not currently available in Cytoscape.

Availability: http://chianti.ucsd.edu/cyto_web/plugins/index.php

Contact:robert_kincaid{at}agilent.com

Associate Editor: Dr. Trey Ideker

Received on May 20, 2008; revised on May 20, 2008; accepted on July 14, 2008

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