Abstract
One of the main challenges of data warehousing within biomedical information infrastructures is to enable semantic interoperability between its various stakeholders as well as other interested parties. Promoting the adoption of worldwide accepted information standards along with common controlled terminologies is the right path to achieve that. The HL7 v3 Reference Information Model (RIM) is used to derive consistent health information standards such as laboratory, clinical health record data, problem- and goal-oriented care, public health and clinical research. In this paper we describe a RIM-based warehouse which provides (1) the means for data integration gathered from disparate and diverse data sources, (2) a mixture of XML and relational schemas and (3) a uniform abstract access and query capabilities serving both healthcare and clinical research users. Through the use of constrained standards (templates),,we facilitate semantic interoperability which would be harder to achieve if we only used generic standards in use cases with unique requirements. Such semantic warehousing also lays the groundwork for harmonized representations of data, information and knowledge, and thus enables a single infrastructure to serve analysis tools, decision support applications, clinical data exchange, and point-of-care applications. In addition, we describe the implementation of that semantic warehousing within Hypergenes, a European Commission funded project focused on Essential Hypertension, to illustrate the unique concepts and capabilities of our warehouse.
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References
Kalra, D., Lewalle, P., Rector, A., Rodrigues, J.M., Stroetmann, K.A., Surjan, G., Ustun, B., Virtanen, M., Zanstra, P.E.: Semantic Interoperability for Better Health and Safer Healthcare. In: Stroetmann, V.N. (ed.) Research and Deployment Roadmap for Europe. SemanticHEALTH Project Report (January 2009), Published by the European Commission, http://ec.europa.eu/information_society/ehealth
Knaup, P., Mludek, V., Wiedemann, T., Bauer, J., Haux, R., Kim, L., et al.: Integrating specialized application systems into hospital information systems – obstacles and factors for success. Stud. Health Technol. Inform. 77, 890–894 (2000)
Gold, J.D., Ball, M.J.: The Health Record Banking imperative: A conceptual model. IBM Systems Journal 46(1) (2007)
Bock, B.J., Dolan, C.T., Miller, G.C., Fitter, W.F.: The Data Warehouse as a Foundation for Population-Based Reference Intervals. American Journal of Clinical Pathology 120, 662–670 (2003)
Ruano, G.: Quo vadis personalized medicine? Personal Med. 1(1), 1–7 (2004)
Davis, R.L., Khoury, M.J.: The journey to personalized medicine. Personal Med. 2(1), 1–4 (2005)
Protti, D.: Moving toward a Single Comprehensive Electronic Health Record for Every Citizen in AndalucÃa, Spain. Electronic Healthcare 6(2), 114–123 (2007)
HL7 Reference Information Model, Health Level Seven, Inc., http://www.hl7.org/v3ballot/html/infrastructure/rim/rim.htm
Eggebraaten, T.J., Tenner, J.W., Dubbels, J.C.: A health-care data model based on the HL7 Reference Information Model – References. IBM Systems Journal, Information-Based Medicine 46(1) (2007)
Spronk, R., Kramer, E.: The RIMBAA Technology Matrix. A white paper published at, http://www.ringholm.de/docs/03100_en.htm
Web Ontology Language, http://www.w3.org/TR/owl-features/
Heiler, S.: Semantic interoperability. ACM Computing Surveys 27(2), 271–273 (1995)
Shabo, A., Rabinovici-Cohen, S., Vortman, P.: Revolutionary impact of XML on biomedical information interoperability. IBM Systems Journal 45(2) (2006), http://www.research.ibm.com/journal/sj/452/shabo.html
IBM DB2 pureXML, http://www.ibm.com/db2/xml
Template project on the HL7 ballot site, http://www.hl7.org/v3ballot/html/infrastructure/templates/templates.htm
Li, J., Lincoln, M.J.: Model-driven CDA Clinical Document Development Framework. In: AMIA Annu. Symp. Proc. 2007, October 11, p. 1031 (2007)
Nadkarni, P.M., Brandt, C., Frawley, S., Sayward, F.G., Einbinder, R., Zelterman, D., Schacter, L., Miller, P.L.: Managing Attribute-Value Clinical Trials Data Using the ACT/DB Client-Server Database System. Journal of the American Medical Informatics Association 5(2), 139–151 (1998)
Nadkarni, P.: The EAV/CR Model of Data Representation, http://ycmi.med.yale.edu/nadkarni/eav_cr_frame.htm
Wang, P., Pryor, T.A., Narus, S., Hardman, R., Deavila, M.: The Web-enabled IHC enterprise data warehouse for clinical process improvement and outcomes. In: Proceedings AMIA Annu. Fall Symp. (1997)
Hypergenes, An FP7 European Commission Funded Project: http://www.Hypergenes.eu/
QED (Query for Existing Data) profile, http://wiki.ihe.net/index.php?title=PCC-1#Query_Existing_Data
HL7 CCD (Continuity of Care Document), http://www.hl7.org/documentcenter/public/pressreleases/20070212.pdf
Shabo, D.D.: The seventh layer of the clinical-genomics information infrastructure. IBM Systems Journal 46(1) (2007)
Shabo, A.: Integrating genomics into clinical practice: standards and regulatory challenges. Current Opinion in Molecular Therapeutics 10(3), 267–272 (2008)
Shabo, A.: Independent Health Record Banks – Integrating Clinical and Genomic Data into Patient-Centric Longitudinal and Cross-Institutional Health Records. Personalized Medicine 4(4), 453–455 (2007)
Shabo, A.: How can the emerging patient-centric health records lower costs in pharmacogenomics? Pharmacogenomics 8(5), 507–511 (2007)
Implementation Guide for CDA Release 2: Imaging Integration Levels 1, 2, and 3, Basic Imaging Reports in CDA and DICOM Diagnostic Imaging Reports (DIR) – Universal Realm, Based on HL7 CDA Release 2.0, Release 1.0, Informative Document Second Ballot (September 2008)
IHE - Integrating the Healthcare Enterprise, http://www.ihe.net/
http://wiki.ihe.net/index.php?title=Cross_Enterprise_Document_Sharing
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Bianchi, S. et al. (2009). Semantic Warehousing of Diverse Biomedical Information. In: Feldman, Y.A., Kraft, D., Kuflik, T. (eds) Next Generation Information Technologies and Systems. NGITS 2009. Lecture Notes in Computer Science, vol 5831. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-04941-5_9
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DOI: https://doi.org/10.1007/978-3-642-04941-5_9
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