Corrigendum to “A federated semantic metadata registry framework for enabling interoperability across clinical research and care domains” [J. Biomed. Inf. 46(5) (2013) 784–794] (Journal of Biomedical Informatics (2013) 46(5) (784–794), (S1532046413000750), (10.1016/j.jbi.2013.05.009));A federated semantic metadata registry framework for enabling interoperability across clinical research and care domains

Journal of Biomedical Informatics

Volumn 46, Issue 5, 2013, Pages 784-794

  Sinaci, A Anil ^a,b   Laleci Erturkmen, Gokce B ^b  

^a MIDDLE EAST TECHNICAL UNIVERSITY   (Turkey)

^b Software Research and Development and Consultancy Ltd   (Turkey)

Author keywords

Common Data Elements; Interoperability; ISO IEC 11179; Linked Data; Metadata Registry Repository; Semantic web

Indexed keywords

CLINICAL RESEARCH; ISO STANDARDS; LINKED DATA; METADATA; OPEN DATA; SEMANTIC WEB;

COMMON DATUM; ELECTRONIC HEALTH RECORD (EHRS); ISO/IEC; LINKED OPEN DATA (LOD); METADATA REGISTRY; OPEN SOURCE IMPLEMENTATION; SEMANTIC INTEROPERABILITY; SEMANTIC WEB TECHNOLOGY;

INTEROPERABILITY;

ARTICLE; CLINICAL RESEARCH; COMMON DATA ELEMENT; ELECTRONIC MEDICAL RECORD; HEALTH CARE; LINKED OPEN DATA; METADATA REGISTRY; PRIORITY JOURNAL; REFERENCE DATABASE; REGISTER;

COMMON DATA ELEMENTS; INTEROPERABILITY; ISO/IEC 11179; LINKED DATA; METADATA REGISTRY/REPOSITORY; SEMANTIC WEB;

BIOMEDICAL RESEARCH; DATABASE MANAGEMENT SYSTEMS; ELECTRONIC HEALTH RECORDS; PROGRAMMING LANGUAGES;

EID: 84883756898     PISSN: 15320464     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jbi.2020.103478     Document Type: Erratum

References (62)

1. ISO/IEC. ISO/IEC 11179: information technology - Metadata Registries (MDR) Parts 1-6, 2nd ed.
2. HITSP. C 154: HITSP data dictionary. [accessed 15.04.13]. http://www.hitsp.org/ConstructSet_Details.aspx?&PrefixAlpha=4&PrefixNumeric=154.
3. HITSP. C 32: HITSP summary documents using HL7 Continuity of Care Document (CCD) component. [accessed 15.04.13]. http://www.hitsp.org/ConstructSet_Details.aspx?&PrefixAlpha=4&PrefixNumeric=32.
4. HL7/ASTM. Continuity of Care Document (CCD). [accessed 15.04.13]. http://www.hl7.org/documentcenter/public_temp_DC68F8CB-1C23-BA17-0CB6B9727B87B502/pressreleases/20070212.pdf.
5. FHIMS. Federal Health Information Model. [accessed 15.04.13]. http://www.fhims.org/content/420A62FD03B6_root.html.
6. S&I Framework. Transitions of Care Initiative (ToC). [accessed 15.04.13]. http://wiki.siframework.org/Transitions+of+Care+(ToC)+Initiative.
7. S&I Framework. S&I Clinical Element Data Dictionary (CEDD) WG. [accessed 15.04.13]. http://wiki.siframework.org/S%26I+Clinical+Element+Data+Dictionary+WG.
8. S&I Framework. Query health. [accessed 15.04.13]. http://wiki.siframework.org/Query+Health.
9. Clinical Data Interchange Standards Consortium (CDISC). [accessed 15.04.13]. http://www.cdisc.org/.
10. CDISC. Study Data Tabulation Model (SDTM). [accessed 15.04.13]. http://www.cdisc.org/sdtm.
11. CDISC. Clinical Data Acquisition Standards Harmonization (CDASH). [accessed 15.04.13]. http://www.cdisc.org/cdash.
12. BRIDG. The Biomedical Research Integrated Domain Group (BRIDG) model. [accessed 15.04.13]. http://www.bridgmodel.org/.
13. HL7. HL7 Reference Information Model (RIM). [accessed 15.04.13]. http://www.hl7.org/implement/standards/rim.cfm.
14. FDA. Sentinel initiative - mini-sentinel. [accessed 15.04.13]. http://mini-sentinel.org/.
15. OMOP. Observational Medical Outcomes Project (OMOP). [accessed 15.04.13]. http://omop.fnih.org/.
16. GE/Intermountain Healthcare. Clinical Element Models (CEM). [accessed 15.04.13]. http://www.clinicalelement.com/.
17. NEHTA. Detailed clinical models. [accessed 15.04.13]. http://www.nehta.gov.au/connecting-australia/terminology-and-information/detailed-clinical-models.
18. I2B2. I2B2 star schema. [accessed 15.04.13]. http://www.i2b2.org/events/slides/Workshop1.pdf.
19. Komatsoulis G.A., et al. CaCORE version 3: implementation of a model driven, service-oriented architecture for semantic interoperability. J Biomed Inform 2008, 41:106-123.
20. UK CancerGrid. [accessed 15.04.13]. http://www.cancergrid.org/.
21. AIHW. MeteOR: Metadata Online Registry. [accessed 15.04.13]. http://meteor.aihw.gov.au/.
22. AHRQ. The United States health information knowledgebase. [accessed 15.04.13]. http://ushik.ahrq.gov/.
23. Forsberg K, Malfait F. Semantic models for CDISC based standard and metadata management. Belgium: CDISC Interchange Europe Brussels; 2012. [accessed 15.04.13]. http://kerfors.blogspot.com/2012/05/semantic-models-for-cdisc-based.html.
24. Stausberg J, et al. A national metadata repository for empirical research in Germany. In: 15th International open forum on metadata registries. Berlin (Germany); 2012 May.
25. Rimatzki B, Haas P. Implementation of an ISO/IEC 11179 based metadata registry to foster interoperability of health Telematics applications. In: 15th International open forum on metadata registries. Berlin (Germany); 2012 May.
26. Linked Data. [accessed 15.04.13]. http://linkeddata.org/.
27. W3C. Resource Description Framework (RDF). [accessed 15.04.13]. http://www.w3.org/RDF/.
28. SALUS Resources. OWL ontology for ISO/IEC 11179-3 model. [accessed 15.04.13]. http://github.com/sinaci/semanticMDR/blob/master/core/src/main/resources/model/salus.mdr.owl.
29. Whetzel P.L., et al. BioPortal: enhanced functionality via new Web services from the National Center for Biomedical Ontology to access and use ontologies in software applications. Nucleic Acids Res 2011, 39(Web Server issue):W541-W545.
30. W3C. SKOS: Simple knowledge organization system. [accessed 15.04.13]. http://www.w3.org/2004/02/skos/.
31. IHE. Data Exchange (DEX) profile proposal. [accessed 15.04.13]. http://ftp.ihe.net/Quality/2013_2014_YR_7/QRPH_Technical/2012-11-23_DEX-DetailedProposal_lb.docx.
32. W3C. XML Path Language (Xpath). [accessed 15.04.13]. http://www.w3.org/TR/xpath/.
33. W3C. XML schema. [accessed 15.04.13]. http://www.w3.org/XML/Schema.
34. W3C. SPARQL query language for RDF. [accessed 15.04.13]. http://www.w3.org/TR/rdf-sparql-query/.
35. ISO. ISO/IEC 9075-1:2011 - Structured Query Language (SQL). [accessed 15.04.13]. http://www.iso.org/iso/home/store/catalogue_ics/catalogue_detail_ics.htm?csnumber=53681.
36. SALUS: scalable, standard based interoperability framework for sustainable proactive post market safety studies. [accessed 15.04.13]. http://www.salusproject.eu.
37. W3C. Web Ontology Language (OWL). [accessed 15.04.13]. http://www.w3.org/TR/owl-features/.
38. Apache. Jena. [accessed 15.04.13]. http://jena.apache.org/.
39. Apache. Jena TDB. [accessed 15.04.13]. http://jena.apache.org/documentation/tdb/.
40. Open Link Software. Virtuoso universal server. [accessed 15.04.13]. http://virtuoso.openlinksw.com/.
41. Bizer C., Schultz A. The Berlin SPARQL benchmark. Int J Semant Web Inf Syst 2009, 5(2):24.
42. FDA. ICSR: Individual Case Safety Reports. [accessed 15.04.13]. http://www.fda.gov/ForIndustry/DataStandards/IndividualCaseSafetyReports/default.htm.
43. Reisinger S.J., et al. Development and evaluation of a common data model enabling active drug safety surveillance using disparate healthcare databases. J Am Med Inform Assoc 2010, 17:652-662.
44. Curtis L.H., et al. Design considerations, architecture, and use of the Mini-Sentinel distributed data system. Pharmacoepidem Drug Saf 2012, 21:23-31.
45. Kohane I.S., Churchill S.E., Murphy S.N. A translational engine at the national scale: informatics for integrating biology and the bedside. J Am Med Inform Assoc 2012, 19:181-185.
46. Lowe H.J., et al. STRIDE - an integrated standards-based translational research informatics platform. AMIA Annu Symp Proc 2009, 2009:391-395.
47. Avillach P., et al. Design and validation of an automated method to detect known adverse drug reactions in MEDLINE: a contribution from the EU-ADR project. J Am Med Inform Assoc 2013, 20(3):446-452.
48. Laleci G.B., Yuksel M., Dogac A. Providing semantic interoperability between clinical care and clinical research domains. IEEE J Biomed Health Inform 2013, 17(2):356-369.
49. Weber G.M., et al. The Shared Health Research Information Network (SHRINE): a prototype federated query tool for clinical data repositories. J Am Med Inform Assoc 2009, 16:624-630.
50. Fadly A.E., et al. Integrating clinical research with the Healthcare Enterprise: from the RE-USE project to the EHR4CR platform. J Biomed Inform 2011, 44(1):S94-S102.
51. Jiang G., et al. A collaborative framework for representation and harmonization of clinical study data elements using semantic MediaWiki. AMIA Summits Transl Sci Proc 2010, 2010:11-15.
52. Kunz I., Lin M.C., Frey L. Metadata mapping and reuse in caBIG. BMC Bioinform 2009, 10(2):S4.
53. Pathak J., et al. Mapping clinical phenotype data elements to standardized metadata repositories and controlled terminologies: the eMERGE Network experience. J Am Med Inform Assoc 2011, 18:376-386.
54. IHE. Drug Safety Content profile (DSC). [accessed 15.04.13]. http://www.ihe.net/Technical_Framework/upload/IHE_QRPH_TF_Supplement_Drug_Safety_Content_DSC_TI_2009-08-10.pdf.
55. IHE. Clinical Research Data Capture profile (CRD). [accessed 15.04.13]. http://wiki.ihe.net/index.php?title=Clinical_Research_Data_Capture_-_(CRD).
56. Bain L, Evans J, Lastic PY. Mapping EHR data to a research case report form: how a metadata repository, CDISC's SHARE, can improve the IHE profile Clinical Research Data (CRD). In: 15th International open forum on metadata registries, Berlin, Germany, 2012 May.
57. CDISC. SHARE. [accessed 15.04.13]. http://www.cdisc.org/cdisc-share.
58. Tao C., et al. Towards semantic-web based representation and harmonization of standard meta-data models for clinical studies. AMIA Summits Transl Sci Proc 2011, 2011:59-63.
59. Anderson B, Forsberg K. Linked Data, an opportunity to mitigate complexity in pharmaceutical research and development. In: Proceedings of the 1st international workshop on linked web data management, NY, USA, 2011.
60. Forsberg K. Linking clinical data standards, CDISC Interchange Europe Brussels, Belgium, 2012. [accessed 15.04.13]. http://kerfors.blogspot.com/2011/05/linking-clinical-data-standards.html.
61. CDISC2RDF. [accessed 15.04.13]. http://cdisc2rdf.com/.
62. NIEM. National Information Exchange Model. [accessed 15.04.13]. http://www.niem.gov/.