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Bioinformatics. 2012 Mar 15;28(6):893-4. doi: 10.1093/bioinformatics/bts041. Epub 2012 Feb 15.

CytoSaddleSum: a functional enrichment analysis plugin for Cytoscape based on sum-of-weights scores.

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1
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

Abstract

CytoSaddleSum provides Cytoscape users with access to the functionality of SaddleSum, a functional enrichment tool based on sum-of-weight scores. It operates by querying SaddleSum locally (using the standalone version) or remotely (through an HTTP request to a web server). The functional enrichment results are shown as a term relationship network, where nodes represent terms and edges show term relationships. Furthermore, query results are written as Cytoscape attributes allowing easy saving, retrieval and integration into network-based data analysis workflows.

PMID:
22345616
PMCID:
PMC3307116
DOI:
10.1093/bioinformatics/bts041
[Indexed for MEDLINE]
Free PMC Article
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