GSnet: An Integrated Tool for Gene Set Analysis and Visualization.
- Author:
Yoon Jeong CHOI
1
;
Hyun Goo WOO
;
Ungsik YU
Author Information
1. Nano Materials Simulation and Fabrication Laboratory, Department of Materials Science and Engineering, KAIST, 373-1 Guseong-dong, Yuseong-gu, Daejeon 305-701, Korea.
- Publication Type:Note
- Keywords:
microarray analysis;
gene set analysis;
proteinprotein interaction network;
network visualization
- MeSH:
Gene Ontology;
Microarray Analysis;
Protein Interaction Maps
- From:Genomics & Informatics
2007;5(3):133-136
- CountryRepublic of Korea
- Language:English
-
Abstract:
The Gene Set network viewer (GSnet) visualizes the functional enrichment of a given gene set with a protein interaction network and is implemented as a plug-in for the Cytoscape platform. The functional enrichment of a given gene set is calculated using a hypergeometric test based on the Gene Ontology annotation. The protein interaction network is estimated using public data. Set operations allow a complex protein interaction network to be decomposed into a functionally-enriched module of interest. GSnet provides a new framework for gene set analysis by integrating a priori knowledge of a biological network with functional enrichment analysis.
