Michael Halper's Publications

Please note: If you're interested in a paper, please contact me via e-mail, and I will make arrangements for you to get a copy.

Journal Papers

1. K.-c. Huang, J. Geller, M. Halper, Y. Perl, and J. Xu. Using WordNet synonym substitution to enhance UMLS source integration. To appear in: Artificial Intelligence in Medicine.



2. L. Chen, C. P. Morrey, H. Gu, M. Halper, and Y. Perl. Modeling multi-typed structurally-viewed chemicals with the UMLS Refined Semantic Network. To appear in: Journal of the American Medical Informatics Association (JAMIA).



3. Y. Chen, H. Gu, Y. Perl, J. Geller, and M. Halper. Structural group auditing of a UMLS semantic type's extent. To appear in: Journal of Biomedical Informatics.



4. B. Cohen, M. Oren, H. Min, Y. Perl, and M. Halper. Automated comparative auditing of NCIT genomic roles using NCBI. Journal of Biomedical Informatics, 41(6): pages 904-913, December 2008.



5. H. Min, B. Cohen, M. Halper, M. Oren, and Y. Perl. Detecting role errors in the gene hierarchy of the NCI Thesaurus. Cancer Informatics, 6: pages 293-313, 2008.



6. Y. Wang, M. Halper, H. Min, Y. Perl, Y. Chen, and K. A. Spackman. Structural methodologies for auditing SNOMED. Journal of Biomedical Informatics, 40(5): pages 561-581, October 2007.



7. M. Halper, L. Liu, J. Geller, and Y. Perl. Ownership as a conceptual modeling construct. Data & Knowledge Engineering, 62(2): pages 248-273, August 2007.



8. H. Min, Y. Perl, Y. Chen, M. Halper, J. Geller, and Y. Wang. Auditing as part of the terminology design life cycle. JAMIA, 13(6): pages 676-690, November/December 2006.



9. L. Zhang, M. Halper, Y. Perl, J. Geller, and J. J. Cimino. Relationship structures and semantic type assignments of the UMLS enriched Semantic Network. JAMIA, 12(6): pages 657-666, November/December 2005.



10. L. Zhang, G. Hripcsak, Y. Perl, M. Halper, and J. Geller. An expert study evaluating the UMLS lexical metaschema. Artificial Intelligence in Medicine, 34(3): pages 219-233, July 2005.



11. L. Zhang, Y. Perl, M. Halper, J. Geller, and G. Hripcsak. A lexical metaschema for the UMLS Semantic Network. Artificial Intelligence in Medicine, 33(1): pages 41-59, January 2005.



12. L. Zhang, Y. Perl, M. Halper, J. Geller, and J. J. Cimino. An enriched Unified Medical Language System Semantic Network with a multiple subsumption hierarchy. JAMIA, 11(3): pages 195-206, May/June 2004.



13. H. Gu, Y. Perl, M. Halper, J. Geller, and E. J. Neuhold. Contextual partitioning for comprehension of OODB schemas. Knowledge & Information Systems (KAIS), 6(3): pages 315-344, May 2004.



14. L. Zhang, Y. Perl, M. Halper, and J. Geller. Designing metaschemas for the UMLS enriched Semantic Network. Journal of Biomedical Informatics, 36(6): pages 433-449, December 2003.



15. M. Halper, L. Liu, J. Geller, and Y. Perl. Frameworks for incorporating semantic relationships into object-oriented database systems. Concurrency and Computation: Practice and Experience, 15(15): pages 1337-1362, December 2003.



16. Y. Perl, Z. Chen, M. Halper, J. Geller, L. Zhang, and Y. Peng. The cohesive metaschema: A higher-level abstraction of the UMLS Semantic Network. Journal of Biomedical Informatics, 35(3): pages 194-212, June 2003.



17. J. Geller, H. Gu, Y. Perl, and M. Halper. Semantic refinement and error correction in large terminological knowledge bases. Data & Knowledge Engineering, 45(1): pages 1-32, April 2003.



18. L. Liu, M. Halper, J. Geller, and Y. Perl. Using OODB modeling to partition a vocabulary into structurally and semantically uniform concept groups. IEEE Transactions on Knowledge and Data Engineering, 14(4): pages 850-866, July/August 2002.



19. J. Geller, Y. Perl, M. Halper, Z. Chen, and H. Gu. Evaluation and Application of a Semantic Network Partition. IEEE Transactions on Information Technology in Biomedicine, 6(2): pages 109-115, June 2002.



20. Z. Chen, Y. Perl, M. Halper, J. Geller, and H. Gu. Partitioning the UMLS Semantic Network. IEEE Transactions on Information Technology in Biomedicine, 6(2): pages 102-108, June 2002.



21. H. Gu, Y. Perl, M. Halper, J. Geller, F. Kuo, and J. J. Cimino. Partitioning an object-oriented terminology schema. Methods of Information in Medicine, 40(3): pages 204-212, July 2001.



22. H. Gu, Y. Perl, J. Geller, M. Halper, L. Liu, and J. J. Cimino. Representing the UMLS as an object-oriented database: Modeling issues and advantages. JAMIA, 7(1): pages 66-80, January/February 2000. Selected for reprint in: R. Haux and C. Kulikowski, editors, Yearbook of Medical Informatics: Digital Libraries and Medicine (International Medical Informatics Association), pages 271-285, Schattauer, Stuttgart, Germany, 2001.



23. H. Gu, M. Halper, J. Geller, and Y. Perl. Benefits of an object-oriented database representation for controlled medical terminologies. JAMIA, 6(4): pages 283-303, July/August 1999.



24. L. Liu, M. Halper, J. Geller, and Y. Perl. Controlled vocabularies in OODBs: Modeling issues and implementation. Distributed and Parallel Databases, 7(1): pages 37-65, January 1999.



25. H. Gu, Y. Perl, J. Geller, M. Halper, and M. Singh. A methodology for partitioning a vocabulary hierarchy into trees. Artificial Intelligence in Medicine, 15(1): pages 77-98, January 1999.



26. M. Halper, J. Geller, and Y. Perl. An OODB part-whole model: Semantics, notation, and implementation. Data & Knowledge Engineering, 27(1): pages 59-95, May 1998.

Book Chapter

• X. Zhou, J. Geller, Y. Perl, and M. Halper. An application intersection marketing ontology. In O. Goldreich, A. L. Rosenberg, and A. L. Selman, editors, Theoretical Computer Science: Essays in Memory of Shimon Even, volume 3895 of Lecture Notes in Computer Science, pages 143-163. Springer, Berlin, 2006.

Proceedings Edited

• Proceedings of the Third IFCIS International Conference on Cooperative Information Systems (CoopIS'98), IEEE Computer Society Press, August 1998, 418 pages.

Conference Papers

1. D. Wei, Y. Wang, Y. Perl, J. Xu, M. Halper, and K. A. Spackman. Complexity measures to track the evolution of a SNOMED hierarchy. In J. Suermondt, R. S. Evans, and L. Ohno-Machado, editors, Proceedings of the 2008 American Medical Informatics Association (AMIA) Annual Symposium, pages 778-782, Washington, DC, November 2008.



2. Y. Wang, D. Wei, J. Xu, G. Elhanan, Y. Perl, M. Halper, Y. Chen, K. A. Spackman, and G. Hripcsak. Auditing complex concepts in overlapping subsets of SNOMED. In J. Suermondt, R. S. Evans, and L. Ohno-Machado, editors, Proceedings of the 2008 American Medical Informatics Association (AMIA) Annual Symposium, pages 273-277, Washington, DC, November 2008.



3. M. Halper, Y. Wang, H. Min, Y. Chen, G. Hripcsak, Y. Perl, and K. A. Spackman. Analysis of error concentrations in SNOMED. In J. M. Teich, J. Suermondt, and G. Hripcsak, editors, Proceedings of the 2007 American Medical Informatics Association (AMIA) Annual Symposium, pages 314-318, Chicago, IL, November 2007.



4. K.-c. Huang, J. Geller, M. Halper, and J. J. Cimino. Piecewise synonyms for enhanced UMLS source terminology integration. In J. M. Teich, J. Suermondt, and G. Hripcsak, editors, Proceedings of the 2007 American Medical Informatics Association (AMIA) Annual Symposium, pages 339-343, Chicago, IL, November 2007.



5. Y. Peng, M. Halper, Y. Perl, and J. Geller. Auditing the UMLS for redundant classifications. In I. S. Kohane, editor, Proceedings of the 2002 American Medical Informatics Association (AMIA) Annual Symposium, pages 612-616, San Antonio, TX, November 2002.



6. L. Zhang, Y. Perl, M. Halper, J. Geller, and J. J. Cimino. Enriching the structure of the UMLS Semantic Network. In I. S. Kohane, editor, Proceedings of the 2002 American Medical Informatics Association (AMIA) Annual Symposium, pages 939-943, San Antonio, TX, November 2002.



7. M. Halper, Z. Chen, J. Geller, and Y. Perl. A metaschema of the UMLS based on a partition of its Semantic Network. In S. Bakken, editor, Proceedings of the 2001 American Medical Informatics Association (AMIA) Annual Symposium, pages 234-238, Washington, DC, November 2001.



8. J. Geller, C. Rush, L. Liu, M. Halper, and Y. Perl. Ownership semantics in the financial domain. In R. Meersman, T. Dillon, and K. Aberer, editors, Proceedings of the 9th IFIP 2.6 Working Conference on Database Semantics (DS-9): Semantic Issues in e-Commerce Systems, pages 340-356, Hong Kong, April 2001.



9. Z. Chen, M. Halper, J. Geller, and Y. Perl. A structural partition of the Unified Medical Language System's Semantic Network. In S. Laxminarayan, editor, Proceedings of the 2000 IEEE EMBS International Conference on Information Technology Applications in Biomedicine (ITAB '00), pages 296-301, Arlington, VA, November 2000.



10. H. Gu, Y. Perl, M. Halper, J. Geller, F.-s. Kuo, and J. J. Cimino. Extracting a partition from a complex schema of a medical terminology. In S. Laxminarayan, editor, Proceedings of the 2000 IEEE EMBS International Conference on Information Technology Applications in Biomedicine (ITAB '00), pages 262-267, Arlington, VA, November 2000.



11. Z. Chen, H. Gu, M. Halper, J. Geller, and Y. Perl. A metaschema for the UMLS semantic network. In F. Valafar, editor, Proceedings of the Int'l Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences (METMBS'00), pages 755-761, Las Vegas, NV, June 2000.



12. H. Gu, Y. Perl, J. Geller, M. Halper, L. Liu, and J. J. Cimino. Modeling the UMLS using an OODB. In N. M. Lorenzi, editor, Proceedings of the 1999 American Medical Informatics Association (AMIA) Annual Symposium, pages 82-86, Washington, DC, November 1999.



13. H. Gu, J. Geller, L. Liu, and M. Halper. Using a similarity measurement to partition a vocabulary of medical concepts. In T. Bench-Capon, G. Soda, and A. M. Tjoa, editors, Proceedings of the 10th International Conference on Database and Expert Systems Applications: DEXA'99, Florence, Italy, August 1999. Published as: Lecture Notes in Computer Science, 1677, Springer-Verlag, New York, pages 712-723.



14. L. Liu and M. Halper. Incorporating semantic relationships into an object-oriented database system. Proceedings of the Thirty-Second Hawaii International Conference on System Sciences (HICSS-32), Maui, HI, January 1999 (CD-ROM), Copyright 1999 by the IEEE, 10 pages.



15. H. Gu, L. Liu, M. Halper, J. Geller, and Y. Perl. Converting an integrated hospital formulary into an object-oriented database representation. In C. G. Chute, editor, Proceedings of the 1998 American Medical Informatics Association (AMIA) Annual Symposium, pages 770-774, Orlando, FL, November 1998.



16. H. Gu, Y. Perl, J. Geller, M. Halper, J. J. Cimino, and M. Singh. Partitioning a vocabulary's IS-A hierarchy into trees. In D. R. Masys, editor, Proceedings of the 1997 American Medical Informatics Association (AMIA) Annual Fall Symposium, pages 630-634, Nashville, TN, October 1997.



17. L. Liu, M. Halper, H. Gu, J. Geller, and Y. Perl. Modeling a vocabulary in an object-oriented database. In K. Barker and M. T. Ozsu, editors, CIKM-96, Proceedings of the Fifth International Conference on Information and Knowledge Management, pages 179-188, Rockville, MD, November 1996.



18. H. Gu, J. J. Cimino, M. Halper, J. Geller, and Y. Perl. Utilizing OODB schema modeling for vocabulary management. In J. J. Cimino, editor, Proceedings of the 1996 American Medical Informatics Association (AMIA) Annual Fall Symposium, pages 274-278, Washington, DC, October 1996.



19. M. Halper, H. Gu, J. J. Cimino, J. Geller, and Y. Perl. Comprehending the structure of a medical vocabulary using object-oriented database modeling. OOPSLA'96 Workshop on Object-Oriented Technology for Health Care and Medical Information Systems, San Jose, CA, October 1996.  Position Paper.



20. M. Halper, Y. Perl, O. Yang, and J. Geller. Modeling Business Applications with the OODB Ownership Relationship. In R. S. Freedman, editor, Proceedings of the Third International Conference on AI Applications on Wall St., pages 2-10, New York, NY, June, 1995.



21. O. Yang, M. Halper, J. Geller, and Y. Perl. The OODB ownership relationship. In Proceedings of the International Conference on Object-Oriented Information Systems (OOIS'94), pages 389-403, London, UK, 1994.



22. M. Halper, J. Geller, Y. Perl, and W. Klas. Integrating a part relationship into an open OODB system using metaclasses. In N. Adam, B. Bhargava, and Y. Yesha, editors, CIKM-94, Proceedings of the Third International Conference on Information and Knowledge Management, pages 10-17, Gaithersburg, MD, 1994.



23. M. Halper, J. Geller, and Y. Perl. Value propagation in object-oriented database part hierarchies. In B. Bhargava, T. Finin, and Y. Yesha, editors, Proceedings of the ISMM/ACM Second International Conference on Information and Knowledge Management, pages 606-614, Washington, DC, November, 1993.



24. M. Halper, J. Geller, Y. Perl, and E. J. Neuhold. A graphical schema representation for object-oriented databases. In R. Cooper, editor, Interfaces to Database Systems, pages 282-307, Springer-Verlag, London, 1993.



25. M. Halper, J. Geller, and Y. Perl. An OODB "part" relationship model. In Y. Yesha, editor, Proceedings of the ISMM First International Conference on Information and Knowledge Management, pages 602-611, Baltimore, MD, November, 1992.



26. M. Halper, J. Geller, and Y. Perl. "Part" relations for object-oriented databases. In G. Pernul and A. Tjoa, editors, Proceedings of the Eleventh International Conference on the Entity-Relationship Approach, pages 406-422, Karlsruhe, Germany, October, 1992.