GO::TermFinder--open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes

Bioinformatics. 2004 Dec 12;20(18):3710-5. doi: 10.1093/bioinformatics/bth456. Epub 2004 Aug 5.


Summary: GO::TermFinder comprises a set of object-oriented Perl modules for accessing Gene Ontology (GO) information and evaluating and visualizing the collective annotation of a list of genes to GO terms. It can be used to draw conclusions from microarray and other biological data, calculating the statistical significance of each annotation. GO::TermFinder can be used on any system on which Perl can be run, either as a command line application, in single or batch mode, or as a web-based CGI script.

Availability: The full source code and documentation for GO::TermFinder are freely available from http://search.cpan.org/dist/GO-TermFinder/.

Publication types

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

MeSH terms

  • Abstracting and Indexing / methods
  • Database Management Systems*
  • Databases, Protein*
  • Gene Expression Profiling / methods*
  • Information Storage and Retrieval
  • Natural Language Processing*
  • Oligonucleotide Array Sequence Analysis / methods*
  • Programming Languages
  • Software*
  • User-Computer Interface*
  • Vocabulary, Controlled