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Cross-Ontological Analytics: Combining Associative and Hierarchical Relations in the Gene Ontologies to Assess Gene Product Similarity

  • C. Posse
  • A. Sanfilippo
  • B. Gopalan
  • R. Riensche
  • N. Beagley
  • B. Baddeley
Part of the Lecture Notes in Computer Science book series (LNCS, volume 3992)

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.

Keywords

Gene Ontology Semantic Similarity Protein Pair Spearman Rank Order Correlation Hierarchical Relation 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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Copyright information

© Springer-Verlag Berlin Heidelberg 2006

Authors and Affiliations

  • C. Posse
    • 1
  • A. Sanfilippo
    • 1
  • B. Gopalan
    • 1
  • R. Riensche
    • 1
  • N. Beagley
    • 1
  • B. Baddeley
    • 1
  1. 1.Pacific Northwest National LaboratoryRichlandUSA

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