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

Authors:
Elizabeth I. Boyle;Shuai Weng;Jeremy Gollub;Heng Jin;David Botstein;J. Michael Cherry;Gavin Sherlock
Affiliations:
Department of Genetics;Department of Genetics;Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305, USA;Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305, USA;Department of Genetics;Department of Genetics;Department of Genetics
Venue:
Bioinformatics
Year:
2004

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Abstract

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/