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| Ananiadou, S., Cotter, P., Nobata, C., Okazaki, N., Rea, B., Sasaki, Y., Tsuruoka, Y. und Tsujii, J., SemText: a semantically enriched information retrieval system for biology, in: Proceedings of the 8th International Conference on Systems Biology (ICSB 2007), 2007
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| Araki, N., Yoshida, K., Tsuruoka, Y. und Tsujii, J., Move Prediction in Go with the Maximum Entropy Method, in: 2007 IEEE Symposium on Computational Intelligence and Games, Seiten 189-195, 2007
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| Chun, H.-W., Tsuruoka, Y., Kim, J.-D., Shiba, R., Nagata, N., Hishiki, T. und 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, Seiten 4-15, 2006
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| Chun, H.-W., Tsuruoka, Y., Kim, J.-D., Shiba, R., Nagata, N., Hishiki, T. und Tsujii, J., Automatic Recognition of Topic-Classified Relations between Prostate Cancer and Genes from Medline Abstracts, in: Proceedings of the Second International Symposium on Semantic Mining in Biomedicine, Seiten 5-12, 2006
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| Hahn, U., Buyko, E., Tomanek, K., Piao, S., McNaught, J., Tsuruoka, Y. und Ananiadou, S., An Annotation Type System for a Data-Driven NLP Pipeline, in: Proceedings of the Linguistic Annotation Workshop, Seiten 33--40, Association for Computational Linguistics, 2007
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| Kano, Y., Nguyen, N. T. H., Sætre, R., Fukamachi, K., Yoshida, K., Miyao, Y., Tsuruoka, Y., Ananiadou, S. und Tsujii, J., Sharable type system design for tool inter-operability and combinatorial comparison, in: Proceedings of the First International Conference on Global Interoperability for Language Resources (ICGL), Seiten 122--129, 2008
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| Kano, Y., Nguyen, N. T. H., Sætre, R., Yoshida, K., Fukamachi, K., Miyao, Y., Tsuruoka, Y., Ananiadou, S. und Tsujii, J., Towards Data And Goal Oriented Analysis: Tool Inter-Operability And Combinatorial Comparison, in: Proceedings of the 3rd International Joint Conference on Natural Language Processing (IJCNLP-2008), Seiten 859-864, 2008
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| Kano, Y., Nguyen, N. T. H., Sætre, R., Yoshida, K., Miyao, Y., Tsuruoka, Y., Matsubayashi, Y., Ananiadou, S. und 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), Seiten 616--627, 2008
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| Kemper, B., Matsuzaki, T., Matsuoka, Y., Tsuruoka, Y., Kitano, H., Ananiadou, S. und Tsujii, J., PathText: A Text Mining Integrator for Biological Pathway Visualizations (2010), in: Bioinformatics, 26:12(i374-i381)
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| Kim, J.-D., Ohta, T., Tsuruoka, Y., Tateisi, Y. und 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), Seiten 70--75, 2004
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| Kocbek, S., Sætre, R., Stiglic, G., Kim, J.-D., Pernek, I., Tsuruoka, Y., Kokol, P., Ananiadou, S. und Tsujii, J., Analysis of gene ranking algorithms with extraction of relevant biomedical concepts from Pubmed publications, in: Proceedings of the 1st IEEE International Conference on Computational Advances in Bio and medical Sciences (ICCABS), 2011
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| Kocbek, S., Sætre, R., Stiglic, G., Kim, J.-D., Pernek, I., Tsuruoka, Y., Kokol, P., Ananiadou, S. und Tsujii, J., AGRA: Analysis of Gene Ranking Algorithms (2011), in: Bioinformatics, 27:8(1185-1186)
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| Miyao, Y., Ohta, T., Masuda, K., Tsuruoka, Y., Yoshida, K., Ninomiya, T. und Tsujii, J., Semantic Retrieval for the Accurate Identification of Relational Concepts in Massive Textbases, in: Proceedings of COLING-ACL 2006, Seiten 1017--1024, 2006
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| Ninomiya, T., Matsuzaki, T., Tsuruoka, Y., Miyao, Y. und Tsujii, J., Extremely Lexicalized Models for Accurate and Fast HPSG Parsing, in: Proceedings of EMNLP 2006, Seiten 155--163, 2006
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| Ninomiya, T., Tsuruoka, Y., Miyao, Y. und Tsujii, J., Efficacy of Beam Thresholding, Unification Filtering and Hybrid Parsing in Probabilistic HPSG Parsing, in: Proceedings of IWPT 2005, Seiten 103--114, 2005
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| Nobata, C., Cotter, P., Okazaki, N., Rea, B., Sasaki, Y., Tsuruoka, Y., Tsujii, J. und Ananiadou, S., Kleio: a knowledge-enriched information retrieval system for biology, in: Proceedings of the 31st annual international ACM SIGIR conference on Research and development in information retrieval, Singapore, Singapore, Seiten 787--788, ACM, 2008
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| Ohta, T., Miyao, Y., Ninomiya, T., Tsuruoka, Y., Yakushiji, A., Masuda, K., Takeuchi, J., Yoshida, K., Hara, T., Kim, J.-D., Tateisi, Y. und Tsujii, J., An Intelligent Search Engine and GUI-based Efficient MEDLINE Search Tool Based on Deep Syntactic Parsing, in: Proceedings of the COLING/ACL 2006 Interactive Presentation Sessions, Seiten 17-20, 2006
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| Okazaki, N., Tsuruoka, Y., Ananiadou, S. und Tsujii, J., A Discriminative Candidate Generator for String Transformations, in: Proceedings of the 2008 Conference on Empirical Methods in Natural Language Processing (EMNLP 2008), Seiten 447-456, 2008
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| Piao, S., Ananiadou, S., Tsuruoka, Y., Sasaki, Y. und McNaught, J., Mining Opinion Polarity Relations of Citations, in: Proceedings of the 7th International Workshop on Computational Semantics, Seiten 366-371, 2007
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| Piao, S., Buyko, E., Tsuruoka, Y., Tomanek, K., Kim, J.-D., McNaught, J., Hahn, U., Su, J. und Ananiadou, S., BOOTStrep Annotation Scheme: Encoding Information for Text Mining, in: Proceedings of the 4th Corpus Linguistics Conference (CL2007), 2007
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| Sætre, R., Kemper, B., Oda, K., Okazaki, N., Matsuoka, Y., Kikuchi, N., Kitano, H., Tsuruoka, Y., Ananiadou, S. und Tsujii, J., Connecting Text Mining and Pathways using the PathText Resource, in: Proceedings of the Sixth International Conference on Language Resources and Evaluation (LREC 2008), Seiten 1736-1740, European Language Resources Association (ELRA), 2008
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| Sætre, R., Kemper, B., Oda, K., Okazaki, N., Matsuoka, Y., Kikuchi, N., Kitano, H., Tsuruoka, Y., Ananiadou, S. und Tsujii, J., PathText: Text Mining Tools Integrated with Biological Pathway, in: Genomes to Systems Conference 2008 Handbook, Seiten 65, The Consortium for Post-Genome Science, 2008
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