Overview of BioNLP'09 Shared Task on Event Extraction

2009 Biomedical Natural Language Processing Workshop, BioNLP 2009 - Companion Volume: Shared Task on Event Extraction

Volumn , Issue , 2009, Pages 1-9

  Kim, Jin Dong ^a   Ohta, Tomoko ^a   Pyysalo, Sampo ^a   Kano, Yoshinobu ^a   Tsujii, Jun'ichi ^a,b  

^a UNIVERSITY OF TOKYO   (Japan)

^b UNIVERSITY OF MANCHESTER   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

BIO-MOLECULAR; DESIGN AND IMPLEMENTATIONS; EVALUATION RESULTS; EVENTS EXTRACTIONS; MOLECULAR EVENTS; STATE-OF-THE-ART PERFORMANCE; SUBTASK;

EXTRACTION;

EID: 85104042765     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: None     Document Type: Conference Paper

References (24)

1. Gary D. Bader, Michael P. Cary, and Chris Sander. 2006. Pathguide: A Pathway Resource List. Nucleic Acids Research., 34(suppl 1):D504-506.
2. Daniel M. Bikel. 2004. Intricacies of Collins' Parsing Model. Computational Linguistics, 30(4):479-511.
3. Evelyn Camon, Michele Magrane, Daniel Barrell, Vivian Lee, Emily Dimmer, John Maslen, David Binns, Nicola Harte, Rodrigo Lopez, and Rolf Apweiler. 2004. The Gene Ontology Annotation (GOA) Database: Sharing knowledge in Uniprot with Gene Ontology. Nucl. Acids Res., 32(suppl 1):D262-266.
4. Eugene Charniak and Mark Johnson. 2005. Coarseto-Fine n-Best Parsing and MaxEnt Discriminative Reranking. In Proceedings of the 43rd Annual Meeting of the Association for Computational Linguistics (ACL'05), pages 173-180.
5. Andrew Chatr-aryamontri, Arnaud Ceol, Luisa Montecchi Palazzi, Giuliano Nardelli, Maria Victoria Schneider, Luisa Castagnoli, and Gianni Cesareni. 2007.
6. MINT: The Molecular INTeraction database. Nucleic Acids Research, 35(suppl 1):D572-574.
7. Nancy Chinchor. 1998. Overview of MUC-7/MET-2. In Message Understanding Conference (MUC-7) Proceedings.
8. Marie-Catherine de Marneffe, Bill MacCartney, and Christopher D. Manning. 2006. Generating Typed Dependency Parses from Phrase Structure Parses. In Proceedings of the Fifth International Conference on Language Resources and Evaluation (LREC'06), pages 449-454.
9. William Hersh, Aaron Cohen, Ruslenm Lynn, , and Phoebe Roberts. 2007. TREC 2007 Genomics track overview. In Proceeding of the Sixteenth Text REtrieval Conference.
10. Lynette Hirschman, Martin Krallinger, and Alfonso Valencia, editors. 2007. Proceedings of the Second BioCreative Challenge Evaluation Workshop. CNIO Centro Nacional de Investigaciones Oncológicas.
11. Yoshinobu Kano, William Baumgartner, Luke McCrohon, Sophia Ananiadou, Kevin Cohen, Larry Hunter, and Jun'ichi Tsujii. 2009. U-Compare: Share and compare text mining tools with UIMA. Bioinformatics. To appear.
12. Jin-Dong Kim, Tomoko Ohta, Yoshimasa Tsuruoka, Yuka Tateisi, and Nigel Collier. 2004. Introduction to the bio-entity recognition task at JNLPBA. In Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (JNLPBA), pages 70-75.
13. Jin-Dong Kim, Tomoko Ohta, and Jun'ichi Tsujii. 2008. Corpus annotation for mining biomedical events from lterature. BMC Bioinformatics, 9(1):10.
14. David McClosky and Eugene Charniak. 2008. Self-Training for Biomedical Parsing. In Proceedings of the 46th Annual Meeting of the Association for Computational Linguistics - Human Language Technologies (ACL-HLT'08), pages 101-104.
15. Claire Nédellec. 2005. Learning Language in Logic -Genic Interaction Extraction Challenge. In J. Cussens and C. Nédellec, editors, Proceedings of the 4th Learning Language in Logic Workshop (LLL05), pages 31-37.
16. Tomoko Ohta, Jin-Dong Kim, Sampo Pyysalo, and Jun'ichi Tsujii. 2009. Incorporating GENETAG-style annotation to GENIA corpus. In Proceedings of Natural Language Processing in Biomedicine (BioNLP) NAACL 2009 Workshop. To appear.
17. Sampo Pyysalo, Filip Ginter, Juho Heimonen, Jari Björne, Jorma Boberg, Jouni Järvinen, and Tapio Salakoski. 2007. BioInfer: A corpus for information extraction in the biomedical domain. BMC Bioinformatics, 8(50).
18. Sampo Pyysalo, Tomoko Ohta, Jin-Dong Kim, and Jun'ichi Tsujii. 2009. Static Relations: A Piece in the Biomedical Information Extraction Puzzle. In Proceedings of Natural Language Processing in Biomedicine (BioNLP) NAACL 2009 Workshop. To appear.
19. Laura Rimell and Stephen Clark. 2008. Porting a lexicalized-grammar parser to the biomedical domain. Journal of Biomedical Informatics, To Appear.
20. Stephanie Strassel, Mark Przybocki, Kay Peterson, Zhiyi Song, and Kazuaki Maeda. 2008. Linguistic Resources and Evaluation Techniques for Evaluation of Cross-Document Automatic Content Extraction. In Proceedings of the 6th International Conference on Language Resources and Evaluation (LREC 2008).
21. Lorraine Tanabe, Natalie Xie, Lynne Thom, Wayne Matten, and John Wilbur. 2005. Genetag: A tagged corpus for gene/protein named entity recognition. BMC Bioinformatics, 6(Suppl 1):S3.
22. Yuka Tateisi, Akane Yakushiji, Tomoko Ohta, and Jun'ichi Tsujii. 2005. Syntax Annotation for the GENIA corpus. In Proceedings of the IJCNLP 2005, Companion volume, pages 222-227.
23. Ellen Voorhees. 2007. Overview of TREC 2007. In The Sixteenth Text REtrieval Conference (TREC 2007) Proceedings.
24. John Wilbur, Lawrence Smith, and Lorraine Tanabe. 2007. BioCreative 2. Gene Mention Task. In L. Hirschman, M. Krallinger, and A. Valencia, editors, Proceedings of Second BioCreative Challenge Evaluation Workshop, pages 7-16.