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November/December 2004 (Vol. 19, No. 6)   pp. 78-81
Making Biomedical Ontologies and Ontology Repositories Work

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DOI Bookmark: http://doi.ieeecomputersociety.org/10.1109/MIS.2004.67
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Abstract
Considerable difficulty is involved in standardizing the databases, metadata formats, and knowledge bases that contain the wealth of information available to the biomedical community. One possible solution is to create virtual ontology repositories, which would let users rate and compare the ontologies as well as making the ontologies searchable and easier to browse. Developers could use tools such as Protégé to create, manage, and maintain those repositories.
References
[1] P.T. Spellman et al., "Design and Implementation of Microarray Gene Expression Markup Language (MAGE-ML)," Genome Biology, vol. 3, no. 9, 2002; http://genomebiology.com/2002/3/9/research 0046.
[2] Y. Sure et al., "Why Evaluate Ontology Technologies? Because It Works!" IEEE Intelligent Systems, vol. 19, no. 4, 2004, pp. 74–81.
[3] M. Sintek and S. Decker, "TRIPLE— A Query, Inference, and Transformation Language for the Semantic Web," Proc. 1st Int'l Semantic Web Conf. (ISWC 2002), LNCS 2342, I. Horrocks and J.A. Hendler, eds., Springer-Verlag, 2002, pp. 364–378.
[4] G. Karvounarakis et al., "RQL: A Declarative Query Language for RDF," Proc. 11th Int'l World Wide Web Conf., ACM Press, 2002, pp. 592–603.
[5] J. Gennari et al., "The Evolution of Protégé: An Environment for Knowledge-Based Systems Development," Int'l J. Human-Computer Interaction, vol. 58, no. 1, 2002, pp. 89–123.
[6] C. Rosse and J.L.V. Mejino, "A Reference Ontology for Bioinformatics: The Foundational Model of Anatomy," J. Biomedical Informatics, vol. 36, no. 6, 2003, pp. 478–500.
[7] N. de Keizer et al., "Design of an Intensive Care Diagnostic Classification," Methods of Information in Medicine, vol. 38, no. 2, 1999, pp. 102–112.
[8] A. Abu-Hanna et al., "Protégé as a Vehicle for Developing Medical Terminological Systems," to be published in Int'l J. Human-Computer Studies, 2005.
[9] I. Yeh et al., "Knowledge Acquisition, Consistency Checking and Concurrency Control for Gene Ontology (GO)," Bioinformatics, vol. 19, Jan. 2003, pp. 241–248.
[10] V. Chaudhri et al., "OKBC: A Programmatic Foundation for Knowledge Base Interoperability," Proc. 15th Nat'l Conf. Artificial Intelligence (AAAI-98), AAAI Press/The MIT Press, 1998, pp. 600–607.
[11] N.F. Noy et al., "Creating Semantic Web Contents with Protégé," IEEE Intelligent Systems, vol. 16, no. 2, 2001, pp. 60–71.
[12] N.F. Noy and M.A. Musen, "The PROMPT Suite: Interactive Tools for Ontology Merging and Mapping," Int'l J. Human-Computer Studies, vol. 59, no. 6, 2003, pp. 983–1024.
[13] O. Dameron et al., "Accessing and Manipulating Ontologies Using Web Services," The Semantic Web— ISWC 2004: Proc. 3rd Int'l Semantic Web Conf., LNCS 3298, S.A. McIlwraith, D. Plexousakis, and F. Van Harmelen, eds., Springer-Verlag, 2004.
Additional Information
Index Terms- ontologies, ontology repositories, Protégé

Citation:  Natalya F. Noy, Daniel L. Rubin, Mark A. Musen, "Making Biomedical Ontologies and Ontology Repositories Work," IEEE Intelligent Systems, vol. 19,  no. 6,  pp. 78-81,  Nov/Dec,  2004

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