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ToppGene Suite
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ToppGene Suite

ToppGene Suite consists of 1. ToppFun for functional enrichment analysis based on transcriptome, ontology, proteome, phenotype, and pharmacome, 2. ToppGene for prioritization of candidate genes, 3. ToppNet for ranking genes based on topological features, and 4. ToppGenet for prioritization of neighboring genes based on protein-protein interaction networks.



ToppGene Suite

ToppGene Suite consists of 1. ToppFun for functional enrichment analysis based on transcriptome, ontology, proteome, phenotype, and pharmacome, 2. ToppGene for prioritization of candidate genes, 3. ToppNet for ranking genes based on topological features, and 4. ToppGenet for prioritization of neighboring genes based on protein-protein interaction networks.

Topic

Pathology; Molecular interactions, pathways and networks; Gene expression; Protein interactions; Urology and nephrology

Details

  • Operation: Gene expression analysis; Differential gene expression analysis; Gene expression correlation; Gene functional annotation; Gene-set enrichment analysis
  • Software interface: Web user interface
  • Language: Java
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: Other
    • Cost: Free for academic use
  • Version name: -
    • Maturity: Mature
  • Credit: State of Ohio Computational Medicine Center, National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Diseases (NIH/NIDDK), Cincinnati Digestive Health Center, CCHMC, Cincinnati, OH, USA.
  • Contact: Anil G. Jegga Anil.Jegga _at_ cchmc.org
  • Collection: -

Publications

Chen J, Bardes EE, Aronow BJ, Jegga AG "ToppGene Suite for gene list enrichment analysis and candidate gene prioritization." Nucleic Acids Res. 2009 Jul;37(Web Server issue):W305-11. 10.1093/nar/gkp427. Epub 2009 May 22. https://doi.org/10.1093/nar/gkp427
PMID: 19465376
PMCID: PMC2703978


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