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IBM Systems Journal
Celebrating 10 Years of XML   Volume 45, Number 2, 2006
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Revolutionary impact of XML on biomedical information interoperability - References

 by A. Shabo,
S. Rabinovici-Cohen,
and P. Vortman
Cited references

  1. J. J. Berman and K. Bhatia, “Biomedical Data Integration: Using XML to Link Clinical and Research Data Sets,” Expert Review of Molecular Diagnostics 5, No. 3, 329–336 (2005).
  2. P. A. Covitz, “To Infinity, and Beyond: Uniting the Galaxy of Biological Data,” Omics—A Journal of Integrative Biology 7, No. 1, 21–22 (2003).
  3. R. Schweiger, S. Hoelzer, U. Altmann, J. Rieger, and J. Dudeck, “Plug-and-Play XML—A Health Care Perspective,” Journal of the American Medical Informatics Association 9, No. 1, 37–48 (2002).
  4. Logical Observation Identifiers Names and Codes (LOINC), Regenstrief Institute, Inc., http://www.regenstrief.org/loinc/.
  5. International Classification of Diseases (ICD), World Health Organization, http://www.who.int/classifications/icd/en/.
  6. RxNorm, Standard Names for Clinical Drugs, U.S. National Library of Medicine, http://www.nlm.nih.gov/research/umls/rxnorm/.
  7. Current Procedural Terminology (CPT) of the American Medical Association, http://www.ama-assn.org/ama/pub/category/3113.html.
  8. NCBI at a Glance, National Center for Biotechnology Information, http://www.ncbi.nlm.nih.gov/About/glance/ourmission.html.
  9. K. Anyanwu, A. Sheth, J. Cardoso, J. Miller, and K. Kochut, “Healthcare Enterprise Process Development and Integration,” Journal of Research and Practice in Information Technology 35, No. 2, 83–98 (May 2003).
  10. W. A. Yasnoff, B. L. Humphreys, J. M. Overhage, D. E. Detmer, P. F. Brennan, R. W. Morris, B. Middleton, D. W. Bates, and J. P. Fanning, “A Consensus Action Agenda for Achieving the National Health Information Infrastructure,” Journal of the American Medical Informatics Association 11, No. 4, 332–338 (2004).
  11. Health Level Seven (HL7), an American National Standards Institute (ANSI)-accredited Standards Developing Organization operating in the health-care arena, http://www.hl7.org/.
  12. G. Schadow, D. Russler, C. Mead, J. Case, and C. McDonald, “USAM—Unified Service Action Model—Documentation for the Clinical Area of the HL7 Reference Information Model,” Regenstrief Institute for Health Care Publication, Regenstrief Institute for Health Care, Indiana University School of Medicine, Indianapolis, IN 46202 (2000).
  13. E. W. Huang, D. W. Wang, and D. M. Liou, “Development of a Deterministic XML Schema by Resolving Structure Ambiguity of HL7 Messages,” Computer Methods and Programs in Biomedicine 80, No. 1, 1–15 (2005).
  14. L. Alschuler, SGML Initiative in Health Care (HL7 Health Level-7 and, SGML/XML), http://xml.coverpages.org/gen-apps.html#HL7-SGML.
  15. R. H. Dolin, L. Alschuler, S. Boyer, C. Beebe, F. M. Behlen, P. V. Biron, and A. Shabo, “HL7 Clinical Document Architecture, Release 2,” Journal of the American Medical Informatics Association 13, No. 7, 30–39 (2006).
  16. American Society for Testing and Materials (ASTM) International Standards Worldwide, http://www.astm.org.
  17. Integrating the Healthcare Enterprise (IHE), Healthcare Information and Management Systems Society, Chicago, IL 60611, http://www.himss.org/ASP/topics_ihe.asp.
  18. Continuity of Care Record (CCR), The Concept Paper of the CCR, Version 2.1b, American Society for Testing and Materials (ASTM) International Standards Worldwide, http://www.astm.org/COMMIT/E31_ConceptPaper.doc.
  19. Clinical Data Interchange Standards Consortium (CDISC), http://www.cdisc.org.
  20. Bioinformatic Sequence Markup Language (BSML), http://www.bsml.org.
  21. MicroArray and Gene Expression MAGE-ML, http://www.mged.org/Workgroups/MAGE/mage.html.
  22. ArrayExpress database, European Molecular Biology Laboratory (EMBL) European Bioinformatics Institute (EBI), http://www.ebi.ac.uk/arrayexpress/.
  23. cancer Biomedical Informatics Grid, (caBIG), National Cancer Institute Center for Bioinformatics, https://cabig.nci.nih.gov/overview.
  24. T. Savel, B. Lin, A. Shabo, and G. M. McQuillan, “The Future of Transmitting Human Genomic Data in the Public Health Information Network (PHIN): Using a Prototype Health Level 7 Shared Genotype Refined Message Information Model (HL7 R-MIM) and the Extensible Markup Language (XML),” Proceedings of the 3rd Annual Public Health Information Network (PHIN) Conference, Atlanta, GA (2005), http://www.cdc.gov/phin/05conference/05-11-05/4G_Savel.pdf.
  25. National Health and Nutrition Examination Survey (NHANES), Centers for Disease Control and Prevention (CDC), http://www.cdc.gov/nchs/nhanes.htm.
  26. Life Sciences Identifiers RFP Response, The Object Management Group, http://www.omg.org/docs/lifesci/03-12-02.doc.
  27. A. Shabo and K. S. Hughes, “Family History Information Exchange Services Using HL7 Clinical Genomics Standard Specifications,” International Journal on Semantic Web & Information Systems 1, No. 4, 44–67 (2005).
  28. A. Azagury, M. E. Factor, Y. S. Maarek, and B. Mandler, “A Novel Navigation Paradigm for XML Repositories,” Journal of the American Society for Information Science and Technology (JASIS) 53, No. 6, 515–525 (2002).
  29. JSR-000170 Content Repository for Java Technology API (Final Release), Java Community Process Program, Sun Microsystems, http://www.jcp.org/aboutJava/communityprocess/final/jsr170/.
  30. S. Amer-Yahia, C. Botev, J. Dörre, and J. Shanmugasundaram, “XQuery Full-Text Extensions Explained,” IBM Systems Journal 45, No. 2, 335–352 (2006, this issue).
  31. Report From the W3C Workshop on Binary Interchange of XML Information Item Sets, World Wide Web Consortium (W3C), http://www.w3.org/2003/08/binary-interchange-workshop/Report.html.
  32. R. J. Bayardo, D. Gruhl, V. Josifovski, and J. Myllymaki, “An Evaluation of Binary Encoding Optimizations for Fast Stream Based XML Processing,” Proceedings of the 13th International World Wide Web Conference, New York, NY (2004), pp. 345–354.
  33. IBM Life Sciences Clinical Genomics Solution Helps iCAPTUR4E Centre Understand Genetic Causes of Disease, IBM Systems, http://www-306.ibm.com/software/success/cssdb.nsf/CS/RAHE-6E23F3?OpenDocument&Site=eservermain.
  34. “A first in Canada: The Ste-Justine Hospital Pediatric Research Centre and IBM Canada join forces to advance research into childhood leukemia—Implementation of an informatics infrastructure designed to help researchers speed treatment and improve patient outcomes,” IBM Systems, http://www-03.ibm.com/industries/healthcare/doc/content/news/pressrelease/1340566105.html.


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