QIS: A framework for biomedical database federation

Journal of the American Medical Informatics Association

Volumn 11, Issue 6, 2004, Pages 523-534

  Marenco, Luis ^a,b   Wang, Tzuu Yi ^a   Shepherd, Gordon ^a   Miller, Perry L ^a   Nadkarni, Prakash ^a  

^a Center for Medical Informatics   (United States)

^b YALE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADAPTATION; BIOINFORMATICS; COMPUTER INTERFACE; DATA ANALYSIS; DATA BASE; DECOMPOSITION; EVOLUTION; GENOME; GENOMICS; HUMAN; MEDICAL INFORMATION SYSTEM; NEUROSCIENCE; ORGANIZATION AND MANAGEMENT; QUERY INTEGRATOR SYSTEM; REVIEW; TECHNOLOGY; UNIVERSITY;

EID: 7044274660     PISSN: 10675027     EISSN: None     Source Type: Journal    
DOI: 10.1197/jamia.M1506     Document Type: Article

References (33)

1. S. Koslow, and M. Huerta Neuroinformatics: An Overview of the Human Brain Project 1997 Lawrence Erlbaum Associates Mahwah, NJ
2. P.L. Miller, P. Nadkarni, M. Singer, L. Marenco, M. Hines, and G. Shepherd Integration of multidisciplinary sensory data: a pilot model of the human brain project approach J Am Med Inform Assoc 8 2001 34 48
3. G.M. Shepherd, M.D. Healy, and M.S. Singer Senselab: a project in multidisciplinary, multilevel sensory integration S.H. Koslow M.F. Huerta Neuroinformatics: An Overview of the Human Brain Project 1997 Lawrence Erlbaum Associates Mahwah, NJ 21 56
4. J.A. Kans, and B.F.F. Ouellette Submitting DNA sequences to the databases A.D. Baxevanis B.F.F. Ouellette Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins 1998 John Wiley & Sons New York
5. P. Li BizTalk Server Developer's Guide 2002 Osborne/McGraw-Hill New York
6. Genetic Exchange Inc. Exploiting the life science data explosion to speed new drug discovery. Turn Massive Amounts of Data into Gems of Knowledge Using discoveryHub. Available at: http://www.geneticxchange.com/v3/product/ whitepapers/WPexplosion.pdf. Accessed Dec 17, 2002.
7. L.M. Hass, P.M. Schwarz, P. Kodali, E. Kotlar, J.E. Rice, and W.C. Swope DiscoveryLink: A system for Integrated Access to Life Science Data Sources IBM Syst J 40 2001 489
8. V. Josifovski, and T. Risch Query decomposition for a distributed object-oriented mediator system Dist Parallel Databases 11 2002 307 336
9. S.Y. Chung, and L. Wong Kleisli: a new tool for data integration in biology Trends Biotechnol 17 1999 351 355
10. P. McBrien, and A. Poulovassilis Schema evolution in heterogeneous database architectures, a schema transformation approach A.B. Pidduck 14th International Conference on Advanced Information Systems Engineering (CAiSE 2002) 2002 Springer-Verlag Berlin 484 499
11. Ram S, Shankaranarayanan G. Dynamically Managing Schema Changes in a HDE - Pitfalls and Possibilities. 2003. Available at: http://smgnet.bu.edu/smgnet/ css/staff/pub/GetFile.CFM/Shankar,_G_11.pdf?did=229&Filename=Shankar,_G_11. pdf. Accessed Jan 25, 2004.
12. Li X, Tari Z. Class versioning for schema evolution. In: Proceedings of the Australian Database Conference (ADC), Perth, Australia, 1998, pp 117-28.
13. W. Kim, and J. Seo Classifying schematic and data heterogeneity in multidatabase systems IEEE Comput 24 1991 12 18
14. Sheth AP, Kashyap V. So far (schematically) yet so near (semantically). In: Proceedings of the International Federation for Information Processing (IFIP) Working Group on Database Semantics Conference on Interoperable Database Systems (DS-5) 1992, pp 283-312.
15. Paton NW, Stevens R, Baker PG, Goble CA, Bechhofer S, Brass A. Query processing in the TAMBIS Bioinformatics Source Integration System. In: Proceedings of the 11th International Conference on Scientific and Statistical Databases (SSDBM), 1999. Los Alamitos, CA: IEEE Press, 1999, pp 138-47.
16. R. Stevens, P. Baker, and S. Bechhofer TAMBIS: Transparent access to multiple bioinformatics information sources Bioinformatics 16 2000 184 186
17. A.L. Rector, S. Bechhofer, C.A. Goble, I. Horrocks, W.A. Nowlan, and W.D. Solomon The GRAIL concept modeling language for medical terminology Artif Intell Med 9 1997 139 171
18. Wong LS. The Collection Programming Language. 1996. Available at: http://citeseer.ist.psu.edu/wong96collection.html/. Accessed Apr 20, 2004.
19. D.A. Lindberg, B.L. Humphreys, and A.T. McCray The Unified Medical Language System Methods Inf Med 32 1993 281 291
20. P. Mork, A. Halevy, and P. Tarczy-Hornoch A model for data integration systems of biomedical data applied to online genetic databases AMIA Fall Symp 2001 473 477
21. P. Mork, R. Shaker, A. Halevy, and P. Tarczy-Hornoch PQL: a declarative query language over dynamic biological schemata AMIA Fall Symp 2002 533 537
22. OMIM. Online Mendelian Inheritance in Man. 2002. Available at: http://www.ncbi.nlm.nih.gov/omim/. Accessed Nov 10, 2002.
23. P.M. Nadkarni Management of evolving map data: data structures and algorithms based on the framework map Genomics 30 1995 565 573
24. L. Marenco, N. Tosches, C. Crasto, G. Shepherd, P.L. Miller, and P.M. Nadkarni Achieving evolvable Web-database bioscience applications using the EAV/CR framework: recent advances J Am Med Inform Assoc 10 2003 444 453
25. D. Gardner, K.H. Knuth, and M. Abato Common data model for neuroscience data and data model exchange J Am Med Inform Assoc 8 2001 17 33
26. D. Kaye Loosely Coupled: The Missing Pieces of Web Services 2003 RDS Press Kentfield, CA
27. Masys D. An evaluation of the source selection elements of the prototype UMLS Information Sources Map. In: Proceedings of the Annual Symposium on Computer Applications in Medical Care. 1992:295-8.
28. Andersson O, Armstrong P, Axelsson H, et al. Scalable Vector Graphics (SVG) 1.1 Specification. 2003. Available at: http://www.w3.org/TR/2003/REC- SVG11-20030114/. Accessed Jul 7, 2003.
29. Haertel M, Hayes D, Stallman R, Tower L, Eggert P. GNU DIFF. In. 2.7 ed. Cambridge, MA: Free Software Foundation, 1992. Program and documentation available at: ftp://prep.ai.mit.edu/pub/gnu/diffutils-2.7.
30. J. Krinke, and A. Zeller Linux/Unix Programming Toolset: Version Control, Construction, Testing, and Debugging 2001 John Wiley & Sons New York
31. D.E. Sankoff, and J.B. Kruskal Time Warps, String Edits, and Macromolecules: The Theory and Practice of Sequence Comparison 1983 Pearson Addison-Wesley Reading, MA
32. M. Bota, H.W. Dong, and L.W. Swanson From gene networks to brain networks Nat Neurosci 6 8 2003 795 799
33. P.M. Nadkarni, R.S. Chen, and C.A. Brandt UMLS concept indexing for production databases: a feasibility study J Am Med Inform Assoc 8 2001 80 91