References

1   C. Blasche, M. Andrade, C. Ouzounis, and A. Valencia. 1999. Automatic extraction of biological information from scientific text: protein-preotein interactions. In AAAI. 

2   J. Castao, J. Zhang, and Pustejovsky. 2002. Anaphora resolution in biomedical literature. In International Symposium on Reference Resolution in NLP, Alicante, Spain. 

3   Mark Craven , Johan Kumlien, Constructing Biological Knowledge Bases by Extracting Information from Text Sources, Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology, p.77-86, August 06-10, 1999 

4   Donald Hindle, Deterministic parsing of syntactic non-fluencies, Proceedings of the 21st annual meeting on Association for Computational Linguistics, June 15-17, 1983, Cambridge, Massachusetts 

5   T. Hishiki, N. Collier, C. Nobata, T. Okazaki-Ohta, N. Ogata, T. Sekimizu, R. Steiner, H. S. Park, and J. Tsujii. 1998. Developing nlp tools for genome informatics: An information extraction perspective. In Proc. of Genome Informatics, Tokyo, Japan, pages 81--90. 

6   B. L. Humphreys, D. A. B. Lindberg, Schoolman H. M., and Barnett G. O. 1998. The unified medical language system: An informatics research collaboration. Journal of the American Medical Informatics Association, (5). 

7   Christopher Kennedy , Branimir Boguraev, Anaphora for everyone: pronominal anaphora resoluation without a parser, Proceedings of the 16th conference on Computational linguistics, August 05-09, 1996, Copenhagen, Denmark 

8   A. J. Link, J. Eng, D. M. Schieltz, E. Carmack, G. J. Mize, D. R. Morris, B. M. Garvik, and J. R. 3rd. Yates. 1999. Direct analysis of protein complexes using mass spectrometry. Nature Biotechnology, (17):676--82. 

9   David D. McDonald, Robust partial-parsing through incremental, multi-algorithm processing, Text-based intelligent systems: current research and practice in information extraction and retrieval, Lawrence Erlbaum Associates, Inc., Mahwah, NJ, 1992 

10   T. Ono, H. Hishigaki, A. Tanigami, and T. Takagi. 2001. Automatic extraction of information on protein-protein interactions from the biological literature. Bioinformatics, pages 155--161. 

11   J. Pustejovsky and P. Hanks. July, 2001. Very large lexical databasees: A tutorial primer. In Association for Computational Linguistics, Toulouse. 

12   J. Pustejovsky, B. Boguraev, M. Verhagen, P. Buitelaar, and M. Johnston. 1997. Semantic indexing and typed hyperlinking. In AAAI Symposium on Language and the Web, Stanford, CA. 

13   J. Pustejovsky, J. Castao, J. Zhang, and B. Cochran. 2002a. Robust relational parsing over biomedical literature: Extracting inhibit relations. In Pacific Symposium on Biocomputing. 

14   J. Pustejovsky, B. Cochran, J. Castao,, M. Morrell, J. Zhang, and R. Saur. 2002b. Medstract: Natural language tools for mining the biobibliome. In Demo presented at HLT-2002, San Diego, CA. 

15   J. Pustejovsky, A. Rumshinsky, and J. Castao. 2002c. Automatic extensions to UMLS through corpus analytics. In Ontolex 2002. 

16   J. Pustejovsky, J. Castao, and B. Cochran. in preparation. Exploiting given versus new information for information extraction tasks. 

17   Thomas C. Rindflesch , Jayant V. Rajan , Lawrence Hunter, Extracting molecular binding relationships from biomedical text, Proceedings of the sixth conference on Applied natural language processing, p.188-195, April 29-May 04, 2000, Seattle, Washington 

18   T. Sekimizu, H. S. Park, and J. Tsujii. 1998. Identifying the interaction between genes and gene products based on frequently seen verbs in medline abstracts. In Proc. of Genome Informatics, Tokyo, Japan,, pages 62--71. 

19   B. J. Stapley and G. Benoit. 2000. Biobibliometrics: information retrieval and visualization from co-occurrences of gene names in medline abstracts. In Pacific Symposium on Biocomputing, pages 529--40. 
