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Relations in biomedical ontologies

Barry Smith1,2 email, Werner Ceusters3 email, Bert Klagges4 email, Jacob Köhler5 email, Anand Kumar1 email, Jane Lomax6 email, Chris Mungall7 email, Fabian Neuhaus1 email, Alan L Rector8 email and Cornelius Rosse9 email

Institute for Formal Ontology and Medical Information Science, Saarland University, D-66041 Saarbrücken, Germany

Department of Philosophy, University at Buffalo, Buffalo, NY 14260, USA

European Centre for Ontological Research, Saarland University, D-66041 Saarbrücken, Germany

Department of Genetics, University of Leipzig, D-04103 Leipzig, Germany

Rothamsted Research, Harpenden, AL5 2JQ, UK

European Bioinformatics Institute, Hinxton, CB10 1SD, UK

HHMI, Department of Molecular and Cellular Biology, University of California, Berkeley, CA 94729, USA

Department of Computer Science, University of Manchester, M13 9PL, UK

Department of Biological Structure, University of Washington, Seattle, WA 98195, USA

author email corresponding author email

Genome Biology 2005, 6:R46doi:10.1186/gb-2005-6-5-r46

Published: 28 April 2005

Subject areas: Bioinformatics, Genome studies

Abstract

To enhance the treatment of relations in biomedical ontologies we advance a methodology for providing consistent and unambiguous formal definitions of the relational expressions used in such ontologies in a way designed to assist developers and users in avoiding errors in coding and annotation. The resulting Relation Ontology can promote interoperability of ontologies and support new types of automated reasoning about the spatial and temporal dimensions of biological and medical phenomena.


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