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arXiv · 1110.5006

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

Aleksandar Stojmirovic·Alexander Bliskovsky·Yi-Kuo Yu
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Abstract

Summary: 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. Availability: www.ncbi.nlm.nih.gov/CBBresearch/Yu/downloads The source code is placed in Public Domain.

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Aleksandar Stojmirovic, Alexander Bliskovsky, Yi-Kuo Yu. 2011-12-16. CytoSaddleSum: a functional enrichment analysis plugin for Cytoscape based on sum-of-weights scores. https://doi.org/10.1093/bioinformatics%2Fbts041

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