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GO-Elite: A flexible solution for pathway and ontology over-representation

  • Author(s): Zambon, AC
  • Gaj, S
  • Ho, I
  • Hanspers, K
  • Vranizan, K
  • Evelo, CT
  • Conklin, BR
  • Pico, AR
  • Salomonis, N
  • et al.

Published Web Location

https://doi.org/10.1093/bioinformatics/bts366
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Abstract

Summary: We introduce GO-Elite, a flexible and powerful pathway analysis tool for a wide array of species, identifiers (IDs), pathways, ontologies and gene sets. In addition to the Gene Ontology (GO), GO-Elite allows the user to perform over-representation analysis on any structured ontology annotations, pathway database or biological IDs (e.g. gene, protein or metabolite). GO-Elite exploits the structured nature of biological ontologies to report a minimal set of non-overlapping terms. The results can be visualized on WikiPathways or as networks. Built-in support is provided for over 60 species and 50 ID systems, covering gene, disease and phenotype ontologies, multiple pathway databases, biomarkers, and transcription factor and microRNA targets. GO-Elite is available as a web interface, GenMAPP-CS plugin and as a cross-platform application. © The Author(s) 2012. Published by Oxford University Press.

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This item is under embargo until December 31, 2999.