Title: Scaling alignment of large ontologies

Authors: Suzette K. Stoutenburg, Jugal Kalita, Kaily Ewing, Lisa M. Hines

Addresses: The College of Engineering and Applied Science, University of Colorado, Colorado Springs, CO 80918, USA. ' The College of Engineering and Applied Science, University of Colorado, Colorado Springs, CO 80918, USA. ' The College of Letters, Arts and Sciences, University of Colorado, Colorado Springs, CO 80918, USA. ' The College of Letters, Arts and Sciences, University of Colorado, Colorado Springs, CO 80918, USA

Abstract: In recent years, the number of shared biomedical ontologies has increased dramatically, resulting in a need for integration of these knowledge sources. Automated solutions to aligning ontologies address this growing need. However, only very recently, solutions for scalability of ontology alignment have begun to emerge. This research investigates scalability in alignment of large-scale ontologies. We present an alignment algorithm that bounds processing by selecting optimal subtrees to align and show that this improves efficiency without significant reduction in precision. We apply the algorithm in conjunction with our approach that includes modelling ontology alignment in a Support Vector Machine.

Keywords: knowledge acquisition; knowledge management; machine learning; biomedical ontologies; ontology alignment; semantic technology; SVMs; support vector machines; bioinformatics; modelling; semantics.

DOI: 10.1504/IJBRA.2010.036001

International Journal of Bioinformatics Research and Applications, 2010 Vol.6 No.4, pp.384 - 401

Published online: 11 Oct 2010 *

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