Biomedical Ontology Integration

Barry Smith and Cornelius Rosse, “The Role of Foundational Relations in the Alignment of Biomedical Ontologies”, in M. Fieschi, et al. (eds.), Medinfo 2004, Amsterdam: IOS Press, 444–448.

Barry Smith, Werner Ceusters, Bert Klagges, Jacob Köhler, Anand Kumar, Jane Lomax, Chris Mungall, Fabian Neuhaus, Alan Rector, Cornelius Rosse, “Relations in Biomedical Ontologies”, Genome Biology, 2005, 6 (5), R46.

Anand Kumar, Yum Lina Yip, Barry Smith, Pierre Grenon, “Bridging the Gap between Medical and Bioinformatics: An Ontological Case Study in Colon Carcinoma”, Computers in Biology and Medicine, 2006; 36, (7-8): 694-711.

Jean-Luc Verschelde, Mariana Casella Dos Santos, Tom Deray, Barry Smith and Werner Ceusters, “Ontology Assisted Database Integration to Support Natural Language Processing and Biomedical Data-Mining”, Journal of Integrative Bioinformatics, 1 (2003), 1-10; reprinted in R. Hofestädt (ed.), Yearbook of Bioinformatics (2004), 39-48.

Werner Ceusters, Barry Smith and James Matthew Fielding, “LinkSuite™: Software Tools for Formally Robust Ontology-Based Data and Information Integration”, in Proceedings of DILS 2004 (Data Integration in the Life Sciences), (Lecture Notes in Bioinformatics, 2994), Berlin: Springer, 2004, 124–139.

James M. Fielding, Jonathan Simon, Werner Ceusters and Barry Smith, “Ontological Theory for Ontological Engineering: Biomedical Systems Information Integration”, Proceedings of the Ninth International Conference on the Principles of Knowledge Representation and Reasoning (KR2004), Whistler, BC, 2-5 June 2004, 114-120.

Jonathan Simon, James Fielding, Mariana Dos Santos and Barry Smith, “Formal Ontology for Natural Language Processing and the Integration of Biomedical Databases”, International Journal of Medical Informatics, 75 (3-4), 2005, 224-231.

Jonathan Simon, James Matthew Fielding and Barry Smith, “Using Philosophy to Improve the Coherence and Interoperability of Applications Ontologies: A Field Report on the Collaboration of IFOMIS and L&C”, in Gregor Büchel, Bertin Klein and Thomas Roth-Berghofer (eds.), Proceedings of the First Workshop on Philosophy and Informatics. Deutsches Forschungszentrum für künstliche Intelligenz, Cologne: 2004, 65–72.