Gene Functional Annotation with Dynamic Hierarchical Classification Guided by Orthologs

Authors:
Kazuhiro Seki;Yoshihiro Kino;Kuniaki Uehara
Affiliations:
Kobe University, Kobe, Japan 657-8501;Kobe University, Kobe, Japan 657-8501;Kobe University, Kobe, Japan 657-8501
Venue:
DS '09 Proceedings of the 12th International Conference on Discovery Science
Year:
2009

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Abstract

This paper proposes an approach to automating Gene Ontology (GO) annotation in the framework of hierarchical classification that uses known, already annotated functions of the orthologs of a given gene. The proposed approach exploits such known functions as constraints and dynamically builds classifiers based on the training data available under the constraints. In addition, two unsupervised approaches are applied to complement the classification framework. The validity and effectiveness of the proposed approach are empirically demonstrated.