title: OntologyTraverser: an R package for GO analysis.
abstract: 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.
  
  
  BACKGROUND
  Our software is academically available through http://franklin.imgen.bcm.tmc.edu/OntologyTraverser/. Both the R package and the web tool are accessible.
  
  
  BACKGROUND
  cashaw@bcm.tmc.edu
authors.affiliation: Baylor College of Medicine, Department of Molecular and Human Genetics Houston, TX, USA.
authors.forename: A
authors.initials: A
authors.lastname: Young
authors.forename: N
authors.initials: N
authors.lastname: Whitehouse
authors.forename: J
authors.initials: J
authors.lastname: Cho
authors.forename: C
authors.initials: C
authors.lastname: Shaw
mesh_terms: D000465:Algorithms; D003628:Database Management Systems; D030562:Databases, Protein; D004282:Documentation / Q000379:methods*; D016247:Information Storage and Retrieval / Q000379:methods*; D020407:Internet; D009323:Natural Language Processing; D010802:Phylogeny; D011506:Proteins / Q000737:chemistry* / Q000145:classification*; D012984:Software
chemical_list: D011506:Proteins