Overview of the ONIONS project: applying ontologies to the integration of medical terminologies

Data and Knowledge Engineering

Volumn 31, Issue 2, 1999, Pages 183-220

  Gangemi, Aldo ^a   Pisanelli, Domenico M ^a   Steve, Geri ^a  

^a CNR   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

BIOMEDICAL ENGINEERING; INFORMATION DISSEMINATION; KNOWLEDGE BASED SYSTEMS; LINGUISTICS; MANAGEMENT INFORMATION SYSTEMS; TERMINOLOGY; THESAURI;

INFORMATION INTEGRATION; MEDICAL INFORMATICS; ONTOLOGICAL INTEGRATION OF NAIVE SOURCES; ONTOLOGY;

DATABASE SYSTEMS;

EID: 0033308811     PISSN: 0169023X     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0169-023X(99)00023-3     Document Type: Article

References (65)

1. J. Allen, P. Hayes, A common-sense theory of time, in: Proceedings of IJCAI85, 1985.
2. N. Asher, L. Vieu, Towards a geometry of common sense, in: Proceedings of IJCAI95, 1995.
3. P.G. Baker, A. Brass, S. Bechhofer, C. Goble, N. Paton, R. Stevens, TAMBIS: Transparent Access to Multiple Bioinformatics Information Sources: an overview, in: Proceedings of the Sixth International Conference on Intelligent Systems for Molecular Biology, ISMB98, Montreal, 1998.
4. Blois M. Information and medicine. 1980;University of California Press, Berkeley.
5. Borgida A. Description logic in data management. IEEE Transactions on Knowledge and Data Engineering. 7(5):1995;671-682.
6. G.R. Cardona, I sei lati del mondo, Bari, Laterza, 1985.
7. Casati R., Varzi A. The structure of spatial localization. Philosophical Studies. 82:1996.
8. W. Ceusters, F. Buekens, G. De Moor, A. Waagmeester, The distinction between linguistic and conceptual semantics in medical terminology and its implications for NLP-based knowledge acquisition, in: C Chute (Ed.), Proceedings of IMIA WG6 Conference on Natural Language and Medical Concept Representation IMIA WG6, Jacksonville, 1997, pp. 71-80.
9. RA. Coté, DJ. Rothwell, L. Brochu, (Eds.), Snomed International, 3rd ed., Northfield, Ill, College of American Pathologists, 1994.
10. O.M. Duschka, M.R. Genesereth, Infomaster-an information integration tool, in: Proceedings of the International Workshop Intelligent Information Integration during the 21st German Annual Conference on Artificial Intelligence, KI-97. Freiburg, Germany, 1997.
11. A. Farquhar, R. Fikes, J. Rice, The ontolingua server: a tool for collaborative ontology construction, in: Proceedings of Knowledge Acquisition Workshop, Banff, participants edition, 1996.
12. Fillmore C.J. Frames and the semantics of understanding. Quaderni di Semantica. 6(2):1985.
13. Gabrieli E. A new electronic medical nomenclature. Journal of Medical Systems. 3:1989.
14. GALEN Project, documentation available at the URL: http://www.cs.man.ac.uk/mig/galen.
15. A. Gangemi, D.M. Pisanelli, G. Steve, Ontology alignment: experiences with medical terminologies, in N. Guarino (Ed.), Formal Ontology and Information Systems, Amsterdam, IOS-Press, 1998.
16. Gerstl P., Pribbenow S. Midwinters endgames and body parts: a classification of part-whole relations. International Journal of Human-Computer Studies. 43:1996.
17. A. Goñi, E. Mena, A. Illaramendi, Querying heterogeneous and distributed data repositories using ontologies, in: JP. Charrel et al. (Eds.), Information Modeling and Knowledge Bases IX, Amsterdam, IOS Press, 1998, 19-34.
18. N. Guarino (Ed.), Formal ontology in information systems, Amsterdam, IOS-Press, 1998.
19. N. Guarino, Formal ontology and information systems, in: N. Guarino (Ed.), Formal Ontology in Information Systems, Amsterdam, IOS Press, 1998.
20. N. Guarino, M. Carrara, P. Giaretta, An ontology of meta-level categories, in: J. Doyle, E. Sandewall, P. Torasso (Eds.), Principles of Knowledge Representation and Reasoning: Proceedings of KR94, San Mateo, CA, Morgan Kaufmann, Los Atlas, CA, 1994.
21. N. Guarino, Solmc Project, documentation available at the CNR, 1996.
22. Hartmann N. Zur Grundlegung der Ontologie. 1966;de Gruyter, Berlin.
23. http://igm.nlm.nih.gov.
24. http://salmon.cs.tu-berlin.de:8888/leser/research/bib.html.
25. http//saussure.irmkant.rm.cnr.it.
26. http://saussure.irmkant.rm.cnr.it/onto/ontoint.html.
27. http://www.mwsearch.com.
28. B.L. Humphreys, D.A. Lindberg, The unified medical language system project, in: K.C. Lun et al. (Eds.), Proceedings of MedInfo92, Elsevier, Amsterdam, 1992.
29. M. Johnson, The Body in the Mind, Chicago UP, 1989.
30. H. Kamp, Events instants and temporal reference, in: Meaning, Use and Interpretation of Language, de Gruyter, Berlin, 1979.
31. Kittay E.F., Metaphor:1991;Oxford university Press, London.
32. Lehman F., Foxvog D. Putting flesh on the bones: issues that arise in creating anatomical knowledge bases with rich relational structures. AAAI-98 Workshop on Sharing Information in Bioinformatics and Medical Knowledge Bases. 1998.
33. D.B. Lenat, R.V. Guha, Building large knowledge-based systems: representation and inference in the CYC project, Addison-Wesley, Menlo Park, 1990.
34. Leonard H.S., Goodman N. The calculus of individuals and its uses. Journal of Symbolic Logic. 5:1940.
35. Levinson S. Primer for the field investigation of spatial description and conception. Pragmatics. 2/1:1992;5-47.
36. MacGregor R.M. A description classifier for the predicate calculus. Proceedings of AAAI 94. 1994.
37. Mallery J.C. A common lisp hypermedia server. Proceedings WWW 94. 1994.
38. J. McCarthy, S. Buvac, Formalizing context, Stanford Un. Tech. Note STAN-CS-TN-94-13, 1994.
39. National Library of Medicine, UMLS Knowledge Sources, 1998 edition, available from the NLM, Bethesda, Maryland.
40. R. Neches. et al., Enabling technology for knowledge sharing, AI Magazine 3 (1991).
41. Patel-Schneider P.F., Swartout B. Draft of the description logic specification from the KRSS group of the DARPA knowledge sharing effort. 1993.
42. C.S. Peirce, On signs and the categories, in: I fondamenti della semiotica cognitiva, Torino, Einaudi, 1980.
43. D.M. Pisanelli, A. Gangemi, G. Steve, An ontological analysis of the UMLS metathesaurus, Journal of American Medical Informatics Association 5 (symposium supplement), 1998.
44. D.M. Pisanelli, A. Gangemi, G. Steve, WWW-available Conceptual Integration of Medical Terminologies: the ONIONS Experience, in: Proceedings of AMIA 97, Philadelphia, Hanley&Belfus, 1997.
45. Prince G. Narratology. 1982;de Gruyter, Berlin.
46. Pusteovsky J. The generative lexicon. 1995;MIT Press, Cambridge, MA.
47. Rector A., Gangemi A., Galeazzi E., Glowinski A., Rossi-Mori A. The GALEN CORE model schemata for anatomy: towards a re-usable application-independent model of medical concepts. Proceedings of Medical Informatics Europe MIE94. 1994.
48. Rector A., Solomon W.D., Nowlan W.A., Rush T. A terminology server for medical language and medical information systems. Methods of Information in Medicine. 34:1995.
49. S. Schulze-Kremer, Adding semantics to genome databases: towards an ontology for molecular biology, in: Fifth International Conference on Intelligent Systems for Molecular Biology, Halkidiki, Greece, AIII Press, Menlo Park, 1997.
50. Searle J.R. The construction of social reality. 1995;Free Press, New York.
51. Simons P. Parts: a Study in ontology. 1987;Clarendon Press, Oxford.
52. J. Sowa, Knowledge representation: logical, philosophical and computational foundations, PWS, Boston, in press.
53. K.A. Spackman, K.E. Campbell, R.A. Coté, SNOMED RT: a reference terminology for health care, Proceedings of AMIA 97 Conference, 1997.
54. Steels L. Components of expertise. AI Magazine. 11(2):1990.
55. G. Steve, A. Gangemi, D.M. Pisanelli, Integrating medical terminologies with ONIONS methodology, in: H. kangassalo, J.P. Charrel (Eds.), Information Modelling and Knowledge Bases VIII, IOS Press, Amsterdam, 1997.
56. B. Swartout, R. Patil, K. Knight, T. Russ, Toward distributed use of large-scale ontologies, in: Proceedings of Knowledge Acquisition Workshop, Banff, participants edition, 1996.
57. Tarski A. Logic semantics metamathematics. 1956;Clarendon, Oxford.
58. M.S. Tuttle, M.D. Chute, C. Safran, D.J. Abelson, K.E. Campbell, Panel: enterprise experience with a reusable vocabulary component, Journal of American Medical Informatics Association 5 (symposium supplement), 1998.
59. Ungerer F., Schmid H-J. An introduction to cognitive linguistics. 1996;Longman, London.
60. Van Heijst G., Schreiber A.Th., Wielinga B.G. Using explicit ontologies in KBS development. International Journal of Human-Computer Studies. 1997.
61. A. Varzi, Le strutture dell'ordinario, in: Logos, teorie dell'essere, teorie della norma, Milano, Giuffré, 1996.
62. P. Visser, D.M. Jones, TJM. Bench-Capon, MJR. Shave, Assessing heterogeneity by classifying ontology mismatches, in: N. Guarino (Ed.), Formal ontology in information systems, Amsterdam, IOS-Press, 1998.
63. WHO, International Classification of Diseases (10th revision), Geneva, WHO, 1994.
64. Wittgenstein L. On Certainty. 1969;Blackwell, Oxford.
65. Q. Zeng, J.J. Cimino, Automated knowledge extraction from the UMLS, Journal of American Medical Informatics Association 5 (symposium supplement), 1998.