Investigating subsumption in SNOMED CT: An exploration into large description logic-based biomedical terminologies

Artificial Intelligence in Medicine

Volumn 39, Issue 3, 2007, Pages 183-195

  Bodenreider, Olivier ^a   Smith, Barry ^b,c   Kumar, Anand ^b   Burgun, Anita ^d  

^a NATIONAL INSTITUTES OF HEALTH   (United States)

^b SAARLAND UNIVERSITY   (Germany)

^c UNIVERSITY AT BUFFALO   (United States)

^d UNIVERSITÉ DE RENNES 1   (France)

Author keywords

Biomedical ontologies; Description logics; Ontological analysis; SNOMED CT

Indexed keywords

FORMAL LOGIC; ONTOLOGY; QUALITY ASSURANCE; THESAURI;

BIOMEDICAL ONTOLOGIES; DESCRIPTION LOGIC (DL); ONTOLOGICAL ANALYSIS; SNOMED CT;

MEDICAL COMPUTING;

ADULT; AGE DISTRIBUTION; ARTICLE; CHILD; CHILD PARENT RELATION; CONCEPTUAL FRAMEWORK; HUMAN; INHERITANCE; LOGIC; MEDICAL INFORMATION SYSTEM; NOMENCLATURE; PARENT; PRIORITY JOURNAL; QUALITATIVE ANALYSIS; QUALITY CONTROL; SYSTEMATIZED NOMENCLATURE OF MEDICINE;

BIOMEDICAL RESEARCH; COMPUTATIONAL BIOLOGY; DECISION TREES; EXPERT SYSTEMS; HUMANS; INFORMATION STORAGE AND RETRIEVAL; LOGIC; NATURAL LANGUAGE PROCESSING; QUALITY CONTROL; SEMANTICS; SYSTEMATIZED NOMENCLATURE OF MEDICINE; TERMINOLOGY;

EID: 34247144014     PISSN: 09333657     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.artmed.2006.12.003     Document Type: Article

References (21)

1. Pisanelli D.M., Gangemi A., and Steve G. An ontological analysis of the UMLS methathesaurus. In: Chute C.G. (Ed). Proceedings of the AMIA symposium (1998) 810-814
2. Cornet R., and Abu-Hanna A. Usability of expressive description logics-a case study in UMLS. In: Kohane I.S. (Ed). Proceedings of the AMIA symposium (2002) 180-184
3. Hahn U., and Schulz S. Towards a broad-coverage biomedical ontology based on description logics. In: Altman R.B., Dunker A.K., Hunter L., Jung T.A., and Klein T.E. (Eds). Pac Symp Biocomput. World Scientific (2003) 577-588
4. Kashyap V, Borgida A. Representing the UMLS semantic network using OWL: (Or "What's in a Semantic Web link?"). In: Fensel D, Sycara K, Mylopoulos J, editor. The SemanticWeb-ISWC 2003, vol. LNCS 2870. Heidelberg: Springer-Verlag; 2003. p. 1-16.
5. Soualmia L, Golbreich C, Darmoni S. Representing the MeSH in OWL: towards a semi-automatic migration. In: Hahn U, editor. Proceedings of the KR 2004 workshop on formal biomedical knowledge representation (KR-MED 2004), vol. 102 (CEUR-WS, 2004). p. 81-87 http://ceur-ws.org/Vol-102/soualmia.pdf (accessed: December 10, 2006).
6. Wroe C.J., Stevens R., Goble C.A., and Ashburner M. A methodology to migrate the gene ontology to a description logic environment using DAML + OIL. In: Altman R.B., Dunker A.K., Hunter L., Jung T.A., and Klein T.E. (Eds). Pac Symp Biocomput. World Scientific (2003) 624-635
7. Golbeck J, Fragoso G, Hartel F, Hendler J, Oberthaler J, Parsia B. The National Cancer Institute's Thesaurus and Ontology. J Web Seman 2003;1 http://www.websemanticsjournal.org/volume1/issue1/Golbecketal2003/index.html.
8. Horrocks I, Rector A, Goble C, A description logic based schema for the classification of medical data. In: Baader F, Buchheit M, Jeusfeld MA, Nutt W, editors. Proceedings of the 3rd workshop KRDB'96, vol. 4 (CEUR-WS, 1996), p. 24-8. http://ceur-ws.org/Vol-4/ (accessed: December 10, 2006).
9. Stevens R., Baker P., Bechhofer S., Ng G., Jacoby A., Paton N.W., et al. TAMBIS: transparent access to multiple bioinformatics information sources. Bioinformatics 16 (2000) 184-185
10. Ceusters W, Smith B, Flanagan J, Ontology and medical terminology: why description logics are not enough. Proceedings of TEPR 2003-towards an electronic patient record. San Antonio, Texas, May 10-14, 2003 (2003) (CD-ROM publication).
11. Marradi A. Classification, typology, taxonomy. Qual Quantity 24 (1990) 129-157
12. Michael J., Mejino Jr. J.L., and Rosse C. The role of definitions in biomedical concept representation. Proceedings of the AMIA symposium (2001) 463-467
13. Bernauer J. Subsumption principles underlying medical concept systems and their formal reconstruction. Proc Annu Symp Comput Appl Med Care (1994) 140-144
14. Cimino J.J. Desiderata for controlled medical vocabularies in the twenty-first century. Methods Inf Med 37 (1998) 394-403
15. Cimino J.J. Auditing the unified medical language system with semantic methods. J Am Med Inform Assoc 5 (1998) 41-51
16. Ceusters W., Smith B., Kumar A., and Dhaen C. Ontology-based error detection in SNOMED-CT. In: Fieschi M., Coiera E., and Li Y.-C.J. (Eds). Proceedings of MEDINFO 2004. IOS Press (2004) 482-486
17. Bodenreider O., Smith B., and Burgun A. The ontology-epistemology divide: a case study in medical terminology. In: Varzi A.C., and Vieu L. (Eds). Proceedings of the third international conference on formal ontology in information systems (FOIS 2004), vol. 114. IOS Press (2004) 185-195
18. Rector A. Defaults, context, and knowledge: alternatives for OWL-indexed knowledge bases. In: Altman R.B., Dunker A.K., Hunter L., Jung T.A., and Klein T.E. (Eds). Pac Symp Biocomput. World Scientific (2004) 226-237
19. dos Santos MC, Dhaen C, Fielding M, Ceusters W. Philosophical scrutiny for run-time support of application ontology development. In: Varzi AC, Vieu L, editors. Proceedings of the 3rd International Conference on Formal Ontology in Information Systems (FOIS 2004), vol. 114 (IOS Press, 2004), p. 342-52.
20. Guarino N. Some ontological principles for designing upper level lexical resources. In: Rubio A., Gallardo N., Castro R., and Tejada A. (Eds). Proceedings of first international conference on language resources and evaluation. ELRA-European Language Resources Association, Granada, Spain (1998) 527-534
21. Bittner T., and Smith B. A theory of granular partitions. In: Duckham M., Goodchild M.F., and Worboys M.F. (Eds). Foundations of geographic information science (2003), Taylor & Francis, London 117-151