International Journal of Medical Informatics
Volume 75, Issue 3 , Pages 224-231 , March 2006

Formal ontology for natural language processing and the integration of biomedical databases

  • Jonathan Simon

      Affiliations

    • IFOMIS, Saarland University, Saarbrücken, Germany
    • Department of Philosophy, New York University, New York City, NY, USA
    • Corresponding Author InformationCorresponding author at: Institute for Formal Ontology and Medical Information Science, Universität des Saarlandes, Postfach 151150, D-66041 Saarbruecken, Germany. Tel.: +49 681 302 64 770.
  • ,
  • Mariana Dos Santos

      Affiliations

    • Language and Computing nv., Ghent, Belgium
  • ,
  • James Fielding

      Affiliations

    • IFOMIS, Saarland University, Saarbrücken, Germany
  • ,
  • Barry Smith

      Affiliations

    • IFOMIS, Saarland University, Saarbrücken, Germany
    • Department of Philosophy, University at Buffalo, Buffalo, NY, USA

References 

  1. http://www.ifomis.org
  2. Guarino N, Welty C. An overview of OntoClean. In:  Staab S,  Studer R editor. Handbook on Ontologies. Springer-Verlag; 2004;
  3. Gangemi A, Guarino N, Masolo C, Oltramari A, Schneider L. Sweetening ontologies with DOLCE. In: Proceedings of the EKAW 2002. Siguenca, Spain. 2002;
  4. Kumar A, Smith B, Pisanelli D, Gangemi A, Stefanelli M. An ontological framework for the implementation of clinical guidelines in health care organizations. In:  Pisanelli D editors. Ontologies in Medicine, Proceedings of the Workshop on Medical Ontologies. Rome, October 2003. Amsterdam: IOS Press; 2004;
  5. Ceusters W, Smith B, Kumar A, Dhaen C. Mistakes in medical ontologies: where do they come from and how can they be detected?. In:  Pisanelli D editors. Ontologies in Medicine, Proceedings of the Workshop on Medical Ontologies. Rome, October 2003. Amsterdam: IOS Press; 2004;
  6. L. Van Geyt, P. Martens, B. Terzic, J. Flanagan, Get More Out of Your Unstructured Medical Documents, 2002. http://www.landcglobal.com/.
  7. SNOMED® (Systematized Nomenclature for Medicine). http://www.snomed.org/.
  8. Smith B. Mereotopology: a theory of parts and boundaries. Data Knowl. Eng. 1996;20:287–303
  9. GO (Gene Ontology General Documentation). http://www.geneontology.org/doc/GO.doc.html.
  10. J.L. Verschelde, M. Dos Santos, T. Deray, B. Smith, W. Ceusters, Ontology-assisted database integration to support natural language processing and biomedical data-mining, J. Integr. Bioinform., in press.

PII: S1386-5056(05)00130-9

doi: 10.1016/j.ijmedinf.2005.07.015

International Journal of Medical Informatics
Volume 75, Issue 3 , Pages 224-231 , March 2006