The caBIG terminology review process

Journal of Biomedical Informatics

Volumn 42, Issue 3, 2009, Pages 571-580

  Cimino, James J ^a   Hayamizu, Terry F ^b   Bodenreider, Olivier ^c   Davis, Brian ^d   Stafford, Grace A ^b   Ringwald, Martin ^b  

^a NATIONAL INSTITUTES OF HEALTH   (United States)

^b JACKSON LABORATORY   (United States)

^c NATIONAL INSTITUTES OF HEALTH   (United States)

^d 3rd Millenium Inc   (United States)

Author keywords

Auditing; Evaluation; Ontology; Terminology

Indexed keywords

ADVERSE EVENTS; AUDITING; BIOMEDICAL INFORMATICS; CANCER RESEARCH; DATA ELEMENTS; EVALUATION; GENE ONTOLOGY; KEY PARTS; MATRIX; NATIONAL CANCER INSTITUTE; REVIEW PROCESS; WORKING GROUPS;

BIOINFORMATICS; ONTOLOGY;

TERMINOLOGY;

ARTICLE; CANCER RESEARCH; CODING; CONTENT VALIDITY; DOCUMENTATION; INFORMATION PROCESSING; INFORMATION RETRIEVAL; LINGUISTICS; MEDICAL INFORMATION SYSTEM; METHODOLOGY; NOMENCLATURE; PRIORITY JOURNAL; SEMANTICS; STANDARDIZATION; VALIDATION PROCESS;

MEDICAL INFORMATICS; NATIONAL INSTITUTES OF HEALTH (U.S.); TERMINOLOGY AS TOPIC; UNITED STATES;

EID: 65649090889     PISSN: 15320464     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jbi.2008.12.003     Document Type: Article

References (31)

1. Komatsoulis G.A., Warzel D.B., Hartel F.W., Shanbhag K., Chilukuri R., Fragoso G., et al. caCORE version 3: implementation of a model driven, service-oriented architecture for semantic interoperability. J Biomed Inform 41 1 (2008) 106-123
2. Von Eschenbach A.C., and Buetow K. Cancer Informatics Vision: caBIG™. Cancer Inform 2 (2006) 22-24
3. Raiez F., Arts D., and Cornet R. Terminological system maintenance: a procedures framework and an exploration of current practice. Stud Health Technol Inform 116 (2005) 701-706
4. Elkin P.L., Brown S.H., and Chute C.G. Guideline for health informatics: controlled health vocabularies-vocabulary structure and high-level indicators. Medinfo 10 Pt 1 (2001) 191-195
5. Cimino J.J. Desiderata for controlled medical vocabularies in the twenty-first century. Methods Inf Med 37 4-5 (1998) 394-403
6. Walker D. GP Vocabulary Project-Stage 2 Report: SNOMED Clinical Terms (SNOMED CT); November, 2004. Available from: http://www.adelaide.edu.au/health/gp/research/current/vocab/2_02_2.pdf.
7. International Standards Committee (ISO) Technical Committee TC215. TS 17117:2002(E): Health Informatics-controlled Health Terminology-Structure and High Level Indicators. Geneva, 2002.
8. Ashburner M., Ball C.A., Blake J.A., Botstein D., Butler H., Cherry J.M., et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25 1 (2000) 25-29
9. Gene Ontology Consortium. Creating the gene ontology resource: design and implementation. Genome Res. 2001;11(8):1425-33.
10. Sioutos N., de Coronado S., Haber M.W., Hartel F.W., Shaiu W.L., and Wright L.W. NCI Thesaurus: a semantic model integrating cancer-related clinical and molecular information. J Biomed Inform 40 1 (2007) 30-43
11. Hartel F.W., De Coronado S., Dionne R., Fragoso G., and Golbeck J. Modeling a description logic vocabulary for cancer research. J Biomed Inform 38 2 (2005) 114-129
12. Golbeck J., Fragoso G., Hartel F., Hendler J., Oberthaler J., and Parsia B. The National Cancer Institute's Thesaurus and ontology. Web Semantics: Science, Services and Agents on the World Wide Web 1 1 (2003) 75-80
13. National Cancer Institute. Enterprise Vocabulary Services. In: caCORE 3.1 Technical Guide; 2006; p. 49-75.
14. Roles declared in the NCI Thesaurus. Available from: ftp://ftp1.nci.nih.gov/pub/cacore/EVS/ThesaurusSemantics/Roles.pdf.
15. NCI Thesaurus Terms of Use. Available from: ftp://ftp1.nci.nih.gov/pub/cacore/EVS/ThesaurusTermsofUse_files/ThesaurusTermsofUse.pdf.
16. NCI Thesaurus property definitions. Available from: ftp://ftp1.nci.nih.gov/pub/cacore/EVS/ThesaurusSemantics/Properties.pdf.
17. de Coronado S., Haber M.W., Sioutos N., Tuttle M.S., and Wright L.W. NCI Thesaurus: using science-based terminology to integrate cancer research results. Medinfo 11 Pt 1 (2004) 33-37
18. Fragoso G., de Coronado S., Haber M., Hartel F., and Wright L. Overview and utilization of the NCI Thesaurus. Comp Funct Genomics 5 8 (2004) 648-654
19. Hartel F.W., Fragoso G., Ong K.L., and Dionne R. Enhancing quality of retrieval through concept edit history. AMIA Annu Symp Proc (2003) 279-283
20. Ceusters W., Smith B., and Goldberg L. A terminological and ontological analysis of the NCI Thesaurus. Meth Inform Med 44 4 (2005) 498-507
21. Kumar A, Smith B. Oncology ontology in the NCI thesaurus. In: Lecture Notes in Artificial Intelligence (Subseries of Lecture Notes in Computer Science). 2005; 2005: p. 213-20.
22. Cancer Therapy Evaluation Program. Common Terminology Criteria for Adverse Events v3.0 (CTCAE). August 9, 2006. Available from: http://ctep.cancer.gov/forms/CTCAEv3.pdf.
23. caBIG Compatibility & Certification Guidelines. Available from: http://cabig.nci.nih.gov/guidelines_documentation.
24. Cimino J.J. An approach to coping with the annual changes in ICD9-CM. Methods Inf Med 35 3 (1996) 220
25. The NCI LexBIG Enterprise Vocabulary Server. Available from: http://ncicb.nci.nih.gov/NCICB/infrastructure/cacore_overview/vocabulary.
26. Forrey A.W., McDonald C.J., DeMoor G., Huff S.M., Leavelle D., Leland D., et al. Logical observation identifier names and codes (LOINC) database: a public use set of codes and names for electronic reporting of clinical laboratory test results. Clin Chem 42 1 (1996) 81-90
27. McDonald C.J., Huff S.M., Suico J.G., Hill G., Leavelle D., Aller R., et al. LOINC, a universal standard for identifying laboratory observations: a 5-year update. Clin Chem 49 4 (2003) 624-633
28. The National Center for Biomedical Ontology-BioPortal. Available from: http://www.bioontology.org/bioportal.html.
29. Cancer Biomedical Informatics Grid (caBIG) Vocabulary Standards Project Information. Available from: http://gforge.nci.nih.gov/projects/vocabstandard.
30. Spackman K.A. SNOMED CT milestones: endorsements are added to already-impressive standards credentials. Health Inform 21 9 (2004) 54-56
31. Bouhaddou O., Warnekar P., Parrish F., Do N., Mandel J., Kilbourne J., et al. Exchange of computable patient data between the Department of Veterans Affairs (VA) and the Department of Defense (DoD): terminology mediation strategy. J Am Med Inform Assoc 15 2 (2008) 174-183