Interpreting comparative constructions in biomedical text

ACL 2007 - Proceedings of the Workshop on BioNLP 2007: Biological, Translational, and Clinical Language Processing

Volumn , Issue , 2007, Pages 137-144

  Fiszman, Marcelo ^a   Demner Fushman, Dina ^b   Lang, Francois M ^b   Goetz, Philip ^b   Rindflesch, Thomas C ^b  

^a UNIVERSITY OF TENNESSEE   (United States)

^b NATIONAL INSTITUTES OF HEALTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CLINICAL RESEARCH; DIAGNOSIS; DRUG THERAPY; SEMANTICS;

BIOMEDICAL TEXT; CLINICAL TRIAL; DIAGNOSTIC PROCEDURE; F-SCORE; MEDLINE; UNDERSPECIFIED SEMANTICS; UNIFIED MEDICAL LANGUAGE SYSTEMS;

TRANSLATION (LANGUAGES);

EID: 85014698132     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.3115/1572392.1572417     Document Type: Conference Paper

References (29)

1. Ahlers C, Fiszman M, Demner-Fushman D, Lang F, Rindflesch TC. 2007. Extracting semantic predications from MEDLINE citations for pharmacogenomics. Pacific Symposium on Biocomputing 12:209-220.
2. Aronson AR. 2001. Effective mapping of biomedical text to the UMLS Metathesaurus: The MetaMap program. Proc AMIA Symp, 17-21.
3. Blaschke C, Andrade MA, Ouzounis C, and Valencia A. 1999. Automatic extraction of biological information from scientific text: protein-protein interactions. Proceedings of the 7th International Conference on Intelligent Systems for Molecular Biology. Morgan Kaufman Publishers, San Francisco, CA.
4. Christensen L, Haug PJ, and Fiszman M. 2002. MPLUS: A probabilistic medical language understanding system. Proceedings of the Workshop on Natural Language Processing in the Biomedical Domain, Association for Computational Linguistics, 29-36.
5. Chodorow MS, Byrd RI, and Heidom GE. 1985. Extracting Semantic Hierarchies from a Large OnLine Dictionary. Proceedings of the 23rd Annual Meeting of the Association for Computational Linguistics, 299-304.
6. Chun HW, Tsuruoka Y, Kim J-D, Shiba R, Nagata N, Hishiki T, and Tsujii J. 2006, Extraction of gene-disease relations from Medline using domain dictionaries and machine learning. Pac Symp Biocomput, 4-15.
7. Friedman C. 1989. A general computational treatment of the comparative. Proc 27th Annual Meeting Assoc Comp Linguistics, 161-168.
8. Friedman C, Alderson PO, Austin JH, Cimino JJ, and Johnson SB. 1994. A general natural-language text processor for clinical radiology. J Am Med Inform Assoc, 1(2):161-74.
9. Friedman C, Kra P, Yu H, Krauthammer M, and Rzhetsky A. 2001. GENIES: a natural-language processing system for the extraction of molecular pathways from journal articles. Bioinformatics, 17 Suppl 1:S74-S82.
10. Guthrie L, Slater BM, Wilks Y, Bruce R. 1990. Is there content in empty heads? Proceedings of the 13th Conference on Computational Linguistics, v3:138 – 143.
11. Hahn U, Romacker M, and Schulz S. 2002. MEDSYNDIKATE-a natural language system for the extraction of medical information from findings reports. Int J Med Inf, 67(1-3):63-74.
12. Huddleston R, and Pullum GK. 2002. The Cambridge Grammar of the English Language. Cambridge University Press, Cambridge, UK.
13. Humphrey SM, Rogers WJ, Kilicoglu H, Demner-Fushman D, Rindflesch TC. 2006. Word sense disambiguation by selecting the best semantic type based on Journal Descriptor Indexing: Preliminary experiment. J Am Soc Inf SciTech 57(1):96-113.
14. Humphreys BL, Lindberg DA, Schoolman HM, and Barnett OG. 1998. The Unified Medical Language System: An informatics research collaboration. J Am Med Inform Assoc, 5(1):1-11.
15. Jindal, Nitin and Bing Liu. 2006. Identifying comparative sentences in text documents. Proceedings of the 29th Annual International ACM SIGIR Conference on Research & Development on Information Retrieval.
16. Johnson SB, Aguirre A, Peng P, and Cimino J. 1993. Interpreting natural language queries using the UMLS. Proc Annu Symp Comput Appl Med Care, 294-8.
17. Leroy G, Chen H, and Martinez JD. 2003 A shallow parser based on closed-class words to capture relations in biomedical text. J Biomed Inform, 36(3):145-158.
18. Lussier YA, Borlawsky T, Rappaport D, Liu Y, and Friedman C. 2006 PhenoGO: assigning phenotypic context to Gene Ontology annotations with natural language processing. Pac Symp Biocomput, 64-75.
19. McCray AT, Srinivasan S, and Browne AC. 1994. Lexical methods for managing variation in biomedical terminologies. Proc Annu Symp Comput Appl Med Care, 235-9.
20. McCray AT, Burgun A, and Bodenreider O. 2001 Aggregating UMLS semantic types for reducing conceptual complexity. Medinfo, 10(Pt 1): 216-20.
21. Rayner M and Banks A. 1990. An implementable semantics for comparative constructions. Computational Linguistics, 16(2):86-112.
22. Rindflesch TC. 1995. Integrating natural language processing and biomedical domain knowledge for increased information retrieval effectiveness. Proc 5th Annual Dual-use Technologies and Applications Conference, 260-5.
23. Rindflesch TC and Fiszman M. 2003. The interaction of domain knowledge and linguistic structure in natural language processing: Interpreting hypernymic propositions in biomedical text. J Biomed Inform, 36(6):462-77.
24. Rindflesch TC, Marcelo Fiszman, and Bisharah Libbus. 2005. Semantic interpretation for the biomedical research literature. Medical informatics: Knowledge management and data mining in biomedicine. Springer, New York, NY.
25. Rijsbergen V. 1979. Information Retrieval, Butterworth-Heinemann, Newton, MA.
26. Ryan K. 1981. Corepresentational grammar and parsing English comparatives. Proc 19th Annual Meeting Assoc Comp Linguistics, 13-18.
27. Smith L, Rindflesch T, and Wilbur WJ. 2004. MedPost: a part-of-speech tagger for biomedical text. Bioinformatics, 20(14):2320-1.
28. Staab S and Hahn U. Comparatives in context. 1997. Proc 14th National Conference on Artificial Intelligence and 9th Innovative Applications of Artificial Intelligence Conference, 616-621.
29. Yen YT, Chen B, Chiu HW, Lee YC, Li YC, and Hsu CY. 2006. Developing an NLP and IR-based algorithm for analyzing gene-disease relationships.