Annotation of chemical named entities

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

Volumn , Issue , 2007, Pages 57-64

  Corbett, Peter ^a   Batchelor, Colin ^b   Teufel, Simone ^a  

^a UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^b ROYAL SOCIETY OF CHEMISTRY   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

TRANSLATION (LANGUAGES);

CUSTOMISATION; NAMED ENTITIES; NAMED ENTITY RECOGNITION; SCIENTIFIC TEXTS;

NATURAL LANGUAGE PROCESSING SYSTEMS;

EID: 84901002352     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.3115/1572392.1572403     Document Type: Conference Paper

References (19)

1. Peter T. Corbett and Peter Murray-Rust. 2006. High-Throughput Identification of Chemistry in Life Science Texts. CompLife, LNBI 4216:107–118.
2. P. de Matos, M. Ennis, M. Darsow, M. Guedj, K. Degt-yarenko and R. Apweiler. 2006. ChEBI — Chemical Entities of Biological Interest. Nucleic Acids Res, Database Summary Paper 646.
3. George Demetriou and Rob Gaizauskas. 2003. Corpus resources for development and evaluation of a biological text mining system. Proceedings of the Third Meeting of the Special Interest Group on Text Mining, Brisbane, Australia, July.
4. Shipra Dingare, Malvina Nissim, Jenny Finkel, Christopher Manning and Claire Grover. 2005. A system for identifying named entities in biomedical text: how results from two evaluations reflect on both the system and the evaluations. Comparative and Functional Ge-nomics, 6(1-2),77-85.
5. Nick Kemp and Michael Lynch. 1998. Extraction of Information from the Text of Chemical Patents. 1. Identification of Specific Chemical Names. J. Chem. Inf. Comput. Sci., 38:544-551.
6. J.-D. Kim, T. Ohta, Y. Tateisi and J. Tsujii. 2003. GENIA corpus—a semantically annotated corpus for bio-textmining. Bioinformatics, 19(Suppl 1):i180-i182.
7. Jin-Dong Kim, Tomoko Ohta, Yoshimasa Tsuruoka, Yuka Tateisi and Nigel Collier. 2004. Introduction to the Bio-Entity Recognition Task at JNLPBA. Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications, 70-75.
8. Seth Kulick, Ann Bies, Mark Liberman, Mark Mandel, Ryan McDonald, Martha Palmer, Andrew Schein and Lyle Ungar. 2004. Integrated Annotation for Biomedical Information Extraction HLT/NAACL BioLINK workshop, 61-68.
9. Alexander A. Morgan, Lynette Hirschman, Marc Colosimo, Alexander S. Yeh and Jeff B. Colombe. 2004. Gene name identification and normalization using a model organism database. Journal of Biomedical Informatics, 37(6):396-410.
10. Meenakshi Narayanaswamy, K. E. Ravikumar and K. Vijay-Shanker. 2003. A Biological Named Entity Recogniser. Pac. Symp. Biocomput., 427-438.
11. Irena Spasic and Sophia Ananiadou. 2004. Using Automatically Learnt Verb Selectional Preferences for Classification of Biomedical Terms. Journal of Biomedical Informatics, 37(6):483-497.
12. Bingjun Sun, Qingzhao Tan, Prasenjit Mitra and C. Lee Giles. 2007. Extraction and Search of Chemical For-mulae in Text Documents on the Web. The 16th International World Wide Web Conference (WWW’07), 251-259.
13. Manabu Torii and K. Vijay-Shanker. 2002. Using Unlabeled MEDLINE Abstracts for Biological Named Entity Classification. Genome Informatics, 13:567-568.
14. Manabu Torii, Sachin Kamboj and K. Vijay-Shanker. 2004. Using name-internal and contextual features to classify biological terms. Journal of Biomedical Informatics, 37:498-511.
15. Joe A. Townsend, Ann A. Copestake, Peter Murray-Rust, Simone H. Teufel and Christopher A. Waudby. 2005. Language Technology for Processing Chemistry Publications. Proceedings of the fourth UK e-Science All Hands Meeting, 247-253.
16. Alexander Vasserman. 2004. Identifying Chemical Names in Biomedical Text: An Investigation of the Substring Co-occurence Based Approaches. Proceedings of the Student Research Workshop at HLT-NAACL. 7-12.
17. Andreas Vlachos and Caroline Gasperin. 2006. Bootstrapping and Evaluating Named Entity Recognition in the Biomedical Domain. Proceedings of BioNLP in HLT-NAACL. 138-145.
18. W. John Wilbur, George F. Hazard, Jr., Guy Divita, James G. Mork, Alan R. Aronson and Allen C. Browne. 1999. Analysis of Biomedical Text for Chemical Names: A Comparison of Three Methods. Proc. AMIA Symp. 176-180.
19. Alexander Yeh, Alexander Morgan, Marc Colosimo and Lynette Hirschman. 2005. BioCreAtIvE Task IA: gene mention finding evaluation. BMC Bioinformatics 6(Suppl I):S2.