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GOPaD


NAR Molecular Biology Database Collection entry number 939
Alterovitz G.1,2,3,4, Xiang M.5, Mohan M.4 and Ramoni M.F.1,3,4
1Division of Health Sciences and Technology, Harvard Medical School and Massachusetts Institute of Technology, Boston, MA, USA
2Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, MA, USA
3Children’s Hospital Informatics Program, Boston, MA, USA
4Harvard Partners Center for Genetics and Genomics, Harvard Medical School, Boston, MA, USA
5Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA

Database Description

The Gene Ontology Partition Database (GO PaD) contains data from an information theoretic analysis of the Gene Ontology (GO) that maximizes information content for gene enrichment and functional analysis. The GO Partition Database was designed to feature ontology partitions with GO terms of similar specificity. The GO partitions comprise varying numbers of GO nodes and present relevant information theoretic statistics, so researchers can choose to analyze gene datasets at arbitrary desired levels of specificity. The GO Partition Database features GO partitions for functional analysis of genes from human and ten other commonly-studied organisms, based on surveying nearly 132,000 genes. The database site (http://bcl.emed.harvard.edu/proj/gopart) also includes an online tutorial.

Acknowledgements

This work was supported in part by a fellowship from the Whitaker Foundation, the MIT Undergraduate Research Opportunity Program, the National Library of Medicine (NLM/NIH) under grant 5T15LM007092, and the National Human Genome Research Institute (NHGRI/NIH) under grant 1R01HG003354.

References

1. G. Alterovitz, M. Xiang, M. Mohan, and M. F. Ramoni (2007). GO PaD: The Gene Ontology Partition Database, Nucleic Acids Res. 35: in press


Go to the abstract in the NAR 2007 Database Issue.
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