Methods Inf Med 2010; 49(02): 135-140
DOI: 10.3414/ME9302
Special Topic – Original Articles
Schattauer GmbH

Putting Biomedical Ontologies to Work

B. Smith
1  Institute of Formal Ontology and Medical Information Science, Saarland University, Saarbrücken, Germany
2  Department of Philosophy and New York State Center of Excellence in Bioinformatics and Life Sciences, University at Buffalo, Buffalo, NY, USA
,
M. Brochhausen
1  Institute of Formal Ontology and Medical Information Science, Saarland University, Saarbrücken, Germany
› Author Affiliations
Further Information

Publication History



05 February 2010

Publication Date:
17 January 2018 (online)

Summary

Objectives: Biomedical ontologies exist to serve integration of clinical and experimental data, and it is critical to their success that they be put to widespread use in the annotation of data. How, then, can ontologies achieve the sort of user-friendliness, reliability, cost-effectiveness, and breadth of coverage that is necessary to ensure extensive usage?

Methods: Our focus here is on two different sets of answers to these questions that have been proposed, on the one hand in medicine, by the SNOMED CT community, and on the other hand in biology, by the OBO Foundry. We address more specifically the issue as to how adherence to certain development principles can advance the usability and effectiveness of an ontology or terminology resource, for example by allowing more accurate maintenance, more reliable application, and more efficient interoperation with other ontologies and information resources.

Results: SNOMED CT and the OBO Foundry differ considerably in their general approach. Nevertheless, a general trend towards more formal rigor and cross-domain interoperability can be seen in both and we argue that this trend should be accepted by all similar initiatives in the future.

Conclusions: Future efforts in ontology development have to address the need for harmonization and integration of ontologies across disciplinary borders, and for this, coherent formalization of ontologies is a prerequisite.