The common data elements for cancer research: Remarks on functions and structure

Methods of Information in Medicine

Volumn 45, Issue 6, 2006, Pages 594-601

  Nadkarni, Prakash M ^a   Brandt, C A ^a  

^a YALE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Cancer bioinformatics grid; Common Data Elements: cancer research; Metadata registries: ISO IEC 11179

Indexed keywords

ARTICLE; CANCER RESEARCH; DATA BASE; HEALTH CARE QUALITY; MEDICAL INFORMATICS; MEDICAL INFORMATION SYSTEM; MEDICAL PRACTICE; PRIORITY JOURNAL;

EID: 33845959275     PISSN: 00261270     EISSN: None     Source Type: Journal    
DOI: 10.1055/s-0038-1634121     Document Type: Article

References (36)

1. National Cancer Institute. Cancer Bioinformatics Grid; 2004. http://cabig.nci.nih.gov. Last accessed: 11/25/04.
2. Marco D. Building and Managing the Metadata Repository. New York: Wiley; 2000.
3. National Library of Medicine. Medical Subject Headings - Home Page; 2004. www.nlm.nih.gov/mesh/meshhome.html. Last accessed: 11/25/04.
4. Regenstrief Institute. LOINC home page; 2002. http://www.regenstrief.org/ loinc/. Last accessed: 7/8/02.
5. College of American Pathologists. SNOMED Clinical Terms (SNOMED CT); 2002. www. snomed.org. Last accessed: 10/2/02.
6. Gene Ontology Consortium. An Introduction to Gene Ontology; 2004. http://www.geneontology. org/GO.doc.html. Last accessed: 11/26/04.
7. Lindberg DAB, Humphreys BL, McCray AT. The Unified Medical Language System. Methods Inf Med 1993; 32: 281-91.
8. National Cancer Institute. Terminology Resources: NCI Thesaurus and Enterprise Vocabulary Services (EVS); 2004. http://www.nci.nih. gov/cancertopics/terminologyresources. Last accessed: 11/25/04.
9. De Coronado S, Haber MW, Sioutos N, Tuttle MS, Wright LW. NCI Thesaurus: Using Science-based Terminology to Integrate Cancer Research Results. Medinfo 2004; 2004: 33-7.
10. National Cancer Institute. Cancer Data Standards Repository (caDSR); 2004. http://ncicb.nci.nih. gov/core/caDSR. Last accessed: 11/25/04.
11. Mayo Clinic Biomedical Informatics Group. Semantic Structures for Patient Data Retrieval; 2004. http://mayoresearch.mayo.edu/mayo/research/bmi/ grant_sspdr_suppl_2_full.cfm. Last accessed: 12/4/04.
12. Meadows B, Abrams J, Christian M, Silva J, Pifer C, Valmonte C, et al. The Common Data Elements Dictionary - A Standard Nomenclature for the Reporting of Phase 3 Cancer Clinical Trials Data. In: 14th IEEE Symposium on Computer-Based Medical Systems; 2001; Bethesda, MD: IEEE Press, Los Alamitos, CA; 2001.
13. International Standards Organization. ISO/IEC 111179, Information Technology - Metadata Registries; 2004. http://metadata-stds.org/11179/. Last accessed: 11/05/04.
14. Booch G, Rumbaugh J, Jacobson I. The Unified Modeling Language User Guide. Reading, MA: Addison-Wesley; 1998.
15. National Cancer Institute. CDE Browser; 2004. http://cdebrowser.nci.nih. gov/CDEBrowser/. Last accessed: 11/25/04.
16. Cimino JJ. Desiderata for controlled medical vocabularies in the twenty-first century. Methods Inf Med 1998; 37 (4-5): 394-403.
17. Cimino JJ. Formal descriptions and adaptive mechanisms for changes in controlled medical vocabularies. Methods Inf Med 1996; 35 (3): 202-10.
18. Bodenreider O. Circular Hierarchical Relationships in the UMLS: Etiology, Diagnosis, Treatment, Complications and Prevention. In: Proceedings of the AMIA Fall Symposium; 2001; Washington DC: Hanley & Belfus; 2001. pp 57-61.
19. Hersh WR, Campbell EH, Evans DA, Brownlow ND. Empirical, automated vocabulary discovery using large text corpora and advanced natural language processing tools. In: Proceedings/AMIA Annual Fall Symposium; 1996. pp 159-63.
20. White TM, Hauan MJ. Extending the LOINC Conceptual Schema to Support Standardized Assessment Instruments. J Am Med Inform Assoc 2002; 9: 586-99.
21. de Graeff A, de Leeuw JR, Ros WJ, Hordijk GJ, Blijham GH, Winnubst JA. Sociodemographic factors and quality of life as prognostic indicators in head and neck cancer. Eur J Cancer 2001; 37 (3): 332-9.
22. Katz MR, Kopek N, Waldron J, Devins GM, Tomlinson G. Screening for depression in head and neck cancer. Psychooncology 2004; 13 (4): 269-80.
23. van Ginneken AM. Considerations for the representation of meta-data for the support of structured data entry. Methods Inf Med 2003; 42 (3): 226-35.
24. Nadkarni PM, Brandt CA, Marenco L. WebEAV: Automatic Metadata-driven Generation of Web Interfaces to Entity-Attribute-Value Databases. Journal of the American Medical Informatics Association 2000; 7 (7): 343-56.
25. Nadkarni PM, Brandt C, Frawley S, Sayward F, Einbinder R, Zelterman D, et al. Managing attribute-value clinical trials data using the ACT/DB client-server database system. Journal of the American Medical Informatics Association 1998; 5 (2): 139-51.
26. Brandt C, Nadkarni P, Marenco L, Karras B, Lu C, Schacter L, et al. Reengineering a database for clinical trials management: lessons for system architects. Controlled Clinical Trials 2000; 21 (5): 440-61.
27. Solbrig H. Metadata and the Reintegration of Clinical Information: ISO 1179. MD Computing 2000: May-June; 25-8.
28. Curtis T. Common Data Elements (CDEs) Harmonization; 2004. http://cabig.nci.nih.gov/work spaces/VCDE/Documents/Useful_Presentations/CDEs/ caBIGIntegratedCancerResearchHarmoni zation%20082404FINAL.pdf. Last accessed: 12/4/04.
29. Hammond W. Introduction to HL7; 2003. www. hl7.cz/doc/ EasternEuropeTutorial.ppt. Last accessed: 4/14/04.
30. Solbrig HR, Chute CG. Terminology Access Methods Leveraging LDAP Resources. Medinfo 2004; 11: 545-9.
31. Savova GK, Becker D, Harris M, Chute CG. Combining Rule-based Methods and Latent Semantic Analysis for Ontology Structure Construction. Medinfo 2004; 2004 (CD): 1848.
32. Solbrig HR, Armbrust DC, Chute CG. The Open Terminology Services (OTS) project. AMIA Annu Symp Proc 2003. p 1011.
33. Schulz S, Romacker M, Hahn U. Part-whole reasoning in medical ontologies revisited - introducing SEP triplets into classification-based description logics. Proc AMIA Symp 1998. pp 830-4.
34. Hahn U, Schulz S. Towards a broad-coverage biomedical ontology based on description logics. Pac Symp Biocomput 2003. pp 577-88.
35. Rector AL, Rogers JE, Zanstra PE, Van Der Haring E. OpenGALEN: open source medical terminology and tools. AMIA Annu Symp Proc 2003. p 982.
36. Rector AL, Bechhofer S, Goble CA, Horrocks I, Nowlan WA, Solomon WD. The GRAIL concept modelling language for medical terminology. Artif Intell Med 1997; 9 (2): 139-71.