OntologyTraverser: an R package for GO analysis

Bioinformatics. 2005 Jan 15;21(2):275-6. doi: 10.1093/bioinformatics/bth495. Epub 2004 Aug 27.


Gene Ontology (GO) annotations have become a major tool for analysis of genome-scale experiments. We have created OntologyTraverser--an R package for GO analysis of gene lists. Our system is a major advance over previous work because (1) the system can be installed as an R package, (2) the system uses Java to instantiate the GO structure and the SJava system to integrate R and Java and (3) the system is also deployed as a publicly available web tool.

Availability: Our software is academically available through http://franklin.imgen.bcm.tmc.edu/OntologyTraverser/. Both the R package and the web tool are accessible.

Contact: cashaw@bcm.tmc.edu

Publication types

  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Algorithms*
  • Database Management Systems
  • Databases, Protein*
  • Documentation / methods*
  • Information Storage and Retrieval / methods*
  • Internet
  • Natural Language Processing*
  • Phylogeny
  • Proteins / chemistry*
  • Proteins / classification*
  • Software*


  • Proteins