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Bioinformatics. 2011 Apr 1;27(7):1036-8. doi: 10.1093/bioinformatics/btr052. Epub 2011 Feb 3.

DDN: a caBIG® analytical tool for differential network analysis.

Author information

1
Bradley Department of Electrical and Computer Engineering, Virginia Polytechnic Institute and State University, Arlington, VA 22203, USA.

Abstract

Differential dependency network (DDN) is a caBIG® (cancer Biomedical Informatics Grid) analytical tool for detecting and visualizing statistically significant topological changes in transcriptional networks representing two biological conditions. Developed under caBIG®'s In Silico Research Centers of Excellence (ISRCE) Program, DDN enables differential network analysis and provides an alternative way for defining network biomarkers predictive of phenotypes. DDN also serves as a useful systems biology tool for users across biomedical research communities to infer how genetic, epigenetic or environment variables may affect biological networks and clinical phenotypes. Besides the standalone Java application, we have also developed a Cytoscape plug-in, CytoDDN, to integrate network analysis and visualization seamlessly.

AVAILABILITY:

The Java and MATLAB source code can be downloaded at the authors' web site http://www.cbil.ece.vt.edu/software.htm.

PMID:
21296752
PMCID:
PMC3065688
DOI:
10.1093/bioinformatics/btr052
[Indexed for MEDLINE]
Free PMC Article
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