Publication list - NaCTeM Publications

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Sasaki, Y., Rea, B. and Ananiadou, S., Clinical Text Classification under the Open and Closed Topic Assumptions (2009), in: International Journal on Data Mining and Bioinformatics (IJDMB), 3:3(299--313)

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Tsuruoka, Y., Miyao, Y. and Tsujii, J., Towards efficient probabilistic HPSG parsing: integrating semantic and syntactic preference to guide the parsing, in: Proceedings of IJCNLP-04 Workshop: Beyond shallow analyses - Formalisms and statistical modeling for deep analyses, 2004

Tsuruoka, Y. and Tsujii, J., Improving the Performance of Dictionary-based Approaches in Protein Name Recognition (2004), in: Journal of Biomedical Informatics, 37:6(461-470)

Tateisi, Y. and Tsujii, J., Part-of-Speech Annotation of Biology Research Abstracts, in: Proceedings of 4th International Conference on Language Resources and Evaluation (LREC 2004), pages 1267-1270, 2004

SpasiÄ‡, I., NenadiÄ‡, G. and Ananiadou, S., Learning to Classify Biomedical Terms through Literature Mining and Genetic Algorithms, in: Intelligent Data Engineering and Automated Learning â€“ IDEAL 2004, pages 345--351, Springer-Verlag, 2004

NenadiÄ‡, G., SpasiÄ‡, I. and Ananiadou, S., Automatic Discovery of Term Similarities Using Pattern Mining (2004), in: International Journal of Terminology, 10:1(55-80)

SpasiÄ‡, I. and Ananiadou, S., Using automatically learnt verb selectional preferences for classification of biomedical terms (2004), in: Journal of Biomedical Informatics, 37:6(483--497)

NenadiÄ‡, G., Ananiadou, S. and McNaught, J., Enhancing automatic term recognition through recognition of variation, in: Proceedings of COLING 2004, pages 604--610, Association for Computational Linguistics, 2004

Nakanishi, H., Miyao, Y. and Tsujii, J., An Empirical Investigation of the Effect of Lexical Rules on Parsing with a Treebank Grammar, in: Proceedings of The Third Workshop on Treebanks and Lingustic Theories (TLT 2004), pages 103--114, 2004

Miyao, Y. and Tsujii, J., Deep Linguistic Analysis for the Accurate Identification of Predicate-Argument Relations, in: Proceedings of COLING 2004, pages 1392-1397, 2004

Krauthammer, M. and NenadiÄ‡, G., Term identification in the biomedical literature (2004), in: Journal of Biomedical Informatics, 37:6(512--526)

Kim, J.-D., Ohta, T., Tsuruoka, Y., Tateisi, Y. and Collier, N., Introduction to the Bio-Entity Recognition Task at JNLPBA, in: Proceedings of the International Workshop on Natural Language Processing in Biomedicine and its Applications (JNLPBA-04), pages 70--75, 2004

Chun, H.-W., Ohta, T., Kim, J.-D. and Tsujii, J., Building Patterns for Biomedical Event Extraction, in: Proceedings of the 15th International conference on Genome Informatics (GIW), pages 163--164, 2004

Ananiadou, S., Friedman, C. and Tsujii, J., Introduction: named entity recognition in biomedicine (2004), in: Journal of Biomedical Informatics, 37:6(393--395)

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Yakushiji, A., Miyao, Y., Tateisi, Y. and Tsujii, J., Biomedical Information Extraction with Predicate-Argument Structure Patterns, in: Proceedings of the First International Symposium on Semantic Mining in Biomedicine (SMBM), pages 60--69, 2005

Tsuruoka, Y. and Tsujii, J., Chunk Parsing Revisited, in: Proceedings of the 9th International Workshop on Parsing Technologies (IWPT 2005), pages 133--140, 2005

Tsuruoka, Y. and Tsujii, J., Bidirectional inference with the easiest-first strategy for tagging sequence data, in: HLT '05: Proceedings of the conference on Human Language Technology and Empirical Methods in Natural Language Processing, Vancouver, British Columbia, Canada, pages 467--474, Association for Computational Linguistics, 2005

Tsuruoka, Y. and Tsujii, J., Iterative CKY Parsing for Probabilistic Context-Free Grammars, in: Natural Language Processing - IJCNLP 2004, pages 52-60, Springer-Verlag, 2005

Tsuruoka, Y., Ananiadou, S. and Tsujii, J., A Machine Learning Approach To Acronym Generation, in: Proceedings of the Workshop On Linking Biological Literature Ontologies And Databases: Mining Biological Semantics (BioLink 2005), pages 25-31, 2005

Tsujii, J. and Ananiadou, S., Thesaurus or Logical Ontology, Which One Do We Need for Text Mining? (2005), in: Language Resources and Evaluation, 39:1(77-90)

Tsuruoka, Y., Tateisi, Y., Kim, J.-D., Ohta, T., McNaught, J., Ananiadou, S. and Tsujii, J., Developing a Robust Part-of-Speech Tagger for Biomedical Text, in: Advances in Informatics - 10th Panhellenic Conference on Informatics, pages 382--392, Springer-Verlag, 2005

SpasiÄ‡, I. and Ananiadou, S., A flexible measure of contextual similarity for biomedical terms., in: Proceedings of the Pacific Symposium on Biocomputing 10, pages 197--208, 2005

SpasiÄ‡, I., Ananiadou, S. and Tsujii, J., MaSTerClass: a case-based reasoning system for the classification of biomedical terms (2005), in: Bioinformatics, 21:11(2748--2758)

SpasiÄ‡, I., Ananiadou, S., McNaught, J. and Kumar, A., Text mining and ontologies in biomedicine: making sense of raw text. (2005), in: Briefings in Bioinformatics, 6:3(239--251)

Rice, S., NenadiÄ‡, G. and Stapley, B., Mining protein function from text using term-based support vector machines (2005), in: BMC Bioinformatics, 6:Suppl 1(S22)

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