Cross-Ontological analytics: combining associative and hierarchical relations in the gene ontologies to assess gene product similarity

Authors:
C. Posse;A. Sanfilippo;B. Gopalan;R. Riensche;N. Beagley;B. Baddeley
Affiliations:
Pacific Northwest National Laboratory, Richland, WA;Pacific Northwest National Laboratory, Richland, WA;Pacific Northwest National Laboratory, Richland, WA;Pacific Northwest National Laboratory, Richland, WA;Pacific Northwest National Laboratory, Richland, WA;Pacific Northwest National Laboratory, Richland, WA
Venue:
ICCS'06 Proceedings of the 6th international conference on Computational Science - Volume Part II
Year:
2006

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Abstract

Gene and gene product similarity is a fundamental diagnostic measure in analyzing biological data and constructing predictive models for functional genomics. With the rising influence of the gene ontologies, two complementary approaches have emerged where the similarity between two genes/gene products is obtained by comparing gene ontology (GO) annotations associated with the gene/gene products. One approach captures GO-based similarity in terms of hierarchical relations within each gene ontology. The other approach identifies GO-based similarity in terms of associative relations across the three gene ontologies. We propose a novel methodology where the two approaches can be merged with ensuing benefits in coverage and accuracy.