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| Miwa, M., Miyao, Y., Sætre, R. en Tsujii, J., Entity-Focused Sentence Simplification for Relation Extraction, in: Proceedings of the 23rd International Conference on Computational Linguistics (COLING 2010), pagina's 788-796, 2010
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| Miyao, Y., Sagae, K., Sætre, R., Matsuzaki, T. en Tsujii, J., Evaluating Contributions of Natural Language Parsers to Protein-Protein Interaction Extraction (2009), in: Bioinformatics, 25:3(394-400)
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| Miwa, M., Pyysalo, S., Hara, T. en Tsujii, J., Evaluating Dependency Representation for Event Extraction, in: Proceedings of the 23rd International Conference on Computational Linguistics (COLING 2010), pagina's 779-787, 2010
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| Pyysalo, S., Ohta, T., Miwa, M., Cho, H. -C., Tsujii, J. en Ananiadou, S., Event extraction across multiple levels of biological organization (2012), in: Bioinformatics, 28:18(i575-i581)
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| Ohta, T., Pyysalo, S., Miwa, M., Kim, J.-D. en Tsujii, J., Event Extraction for Post-Translational Modifications, in: Proceedings of the 2010 Workshop on Biomedical Natural Language Processing, pagina's 19--27, Association for Computational Linguistics, 2010
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| Kim, J.-D., Ohta, T., Pyysalo, S., Kano, Y. en Tsujii, J., Extracting Bio-Molecular Events From Literature—The BioNLP’09 Shared Task (2011), in: Computational Intelligence, 27:4(513-540)
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| Sætre, R., Yoshida, K., Miwa, M., Matsuzaki, T., Kano, Y. en Tsujii, J., Extracting Protein-Interactions from Text with the Unified AkaneRE Event Extraction System (2010), in: Transactions on Computational Biology and Bioinformatics (TCBB), BioCreative II.5 Special Issue, 7:3(442-453)
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| Chun, H.-W., Tsuruoka, Y., Kim, J.-D., Shiba, R., Nagata, N., Hishiki, T. en Tsujii, J., Extraction of Gene-Disease Relations from MedLine using Domain Dictionaries and Machine Learning, in: Proceedings of the Pacific Symposium on Biocomputing (PSB) 11, pagina's 4-15, 2006
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| Ninomiya, T., Matsuzaki, T., Tsuruoka, Y., Miyao, Y. en Tsujii, J., Extremely Lexicalized Models for Accurate and Fast HPSG Parsing, in: Proceedings of EMNLP 2006, pagina's 155--163, 2006
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| Kano, Y., Nguyen, N. T. H., Sætre, R., Yoshida, K., Miyao, Y., Tsuruoka, Y., Matsubayashi, Y., Ananiadou, S. en Tsujii, J., Filling the gaps between tools and users: a tool comparator, using protein-protein interaction as an example., in: Proceedings of the Pacific Symposium on Biocomputing 2008 (PSB 2008), pagina's 616--627, 2008
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| Sætre, R., Miwa, M., Yoshida, K. en Tsujii, J., From Protein-Protein Interaction to Molecular Event Extraction, in: Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, pagina's 103--106, 2009
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| Kim, J.-D., Ohta, T., Oda, K. en Tsujii, J., From Text to Pathway: Corpus Annotation for Knowledge Acquisition from Biomedical Literature, in: Proceedings of the 6th Asia Pacific Bioinformatics Conference, pagina's 165-176, Imperial College Press, 2008
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