Publication list - NaCTeM Publications

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Ananiadou, S., Thompson, P., Nawaz, R., McNaught, J. and Kell, D. B., Event Based Text Mining for Biology and Functional Genomics (2014), in: Briefings in Functional Genomics, 14:3(213-230)

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Pyysalo, S., Ohta, T., Miwa, M., Cho, H. -C., Tsujii, J. and 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. and Tsujii, J., Event Extraction for DNA Methylation, in: Proceedings of the fourth International Symposium for Semantic Mining in Biomedicine (SMBM 2010), 2010

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Ohta, T., Pyysalo, S., Miwa, M., Kim, J.-D. and Tsujii, J., Event Extraction for Post-Translational Modifications, in: Proceedings of the 2010 Workshop on Biomedical Natural Language Processing, pages 19--27, Association for Computational Linguistics, 2010

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Ananiadou, S., Pyysalo, S., Tsujii, J. and Kell, D. B., Event extraction for systems biology by text mining the literature (2010), in: Trends in Biotechnology, 28:7(381-390)

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Zerva, C. and Ananiadou, S., Event Extraction in pieces: Tackling the partial event identification problem on unseen corpora, in: Proceedings of the 2015 Workshop on Biomedical Natural Language Processing (BioNLP 2015), pages 31-41, 2015

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Miwa, M., SÃ¦tre, R., Kim, J.-D. and Tsujii, J., Event Extraction with Complex Event Classification Using Rich Features (2010), in: Journal of Bioinformatics and Computational Biology, 8:1(131--146)

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Sasaki, Y., Thompson, P., Cotter, P., McNaught, J. and Ananiadou, S., Event Frame Extraction Based on a Gene Regulation Corpus, in: Proceedings of the 22nd International Conference on Computational Linguistics (Coling 2008), pages 761--768, Coling 2008 Organizing Committee, 2008

Nawaz, R., Thompson, P. and Ananiadou, S., Event Interpretation: A Step towards Event-Centred Text Mining, in: Proceedings of the 1st Automated Motif Discovery in Cultural Heritage and Scientific Communication Texts (AMICUS) workshop, 2010

Odbal, G. Z. and Ananiadou, S., Examining and mitigating gender bias in text emotion detection task (2022), in: Neurocomputing, 493(422-434)

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Thew, S., Sutcliffe, A., de Bruijn, O., McNaught, J., Procter, R., Venters, C.C. and Buchan, I., Experience in e-Science Requirements Engineering, pages 277-282, 2008

Rosner, M., Attard, A., Thompson, P., Gatt, A. and Ananiadou, S., Extending a Tool Resource Framework with U-Compare, in: Proceedings of the 5th Language & Technology Conference (LTC'2011), 2011

Rosner, M., Attard, A., Thompson, P., Gatt, A. and Ananiadou, S., Extending a Tool Resource Framework with U-Compare, in: Human Language Technology Challenges for Computer Science and Linguistics, pages 315-326, Springer, 2014

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Kontonatsios, G., Thompson, P., Batista-Navarro, R., MihÄƒilÄƒ, C., Korkontzelos, I. and Ananiadou, S., Extending an interoperable platform to facilitate the creation of multilingual and multimodal NLP applications, in: Proceedings of the 51st Annual Meeting of the Association for Computational Linguistics: System Demonstrations, Association for Computational Linguistics, Sofia, Bulgaria, pages 43-48, 2013

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Yu, K. and Tsujii, J., Extracting Bilingual Dictionary from Comparable Corpora with Dependency Heterogeneity, in: Proceedings of NAACL-HLT 2009, pages 121--124, 2009

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Kim, J.-D., Ohta, T., Pyysalo, S., Kano, Y. and Tsujii, J., Extracting Bio-Molecular Events From Literatureâ€”The BioNLPâ€™09 Shared Task (2011), in: Computational Intelligence, 27:4(513-540)

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Thompson, P. and Ananiadou, S., Extracting Gene-Disease Relations from Text to Support Biomarker Discovery, in: Proceedings of the 7th International conference on Digital Health, pages 180-189, 2017

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SÃ¦tre, R., Yoshida, K., Miwa, M., Matsuzaki, T., Kano, Y. and 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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Sasaki, Y., Wang, X. and Ananiadou, S., Extracting Secondary Bio-Event Arguments with Extraction Constraints (2011), in: Computational Intelligence, 27:4(702-721)

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Miwa, M., Thompson, P., McNaught, J., Kell, D. B. and Ananiadou, S., Extracting semantically enriched events from biomedical literature (2012), in: BMC Bioinformatics, 13(108)

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Chun, H.-W., Tsuruoka, Y., Kim, J.-D., Shiba, R., Nagata, N., Hishiki, T. and 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, pages 4-15, 2006

Ninomiya, T., Matsuzaki, T., Tsuruoka, Y., Miyao, Y. and Tsujii, J., Extremely Lexicalized Models for Accurate and Fast HPSG Parsing, in: Proceedings of EMNLP 2006, pages 155--163, 2006

Shardlow, M., Przybyɫa, P., Batista-Navarro, R., Carter, J., McNaught, J. and Ananiadou, S., Facilitating and promoting web annotation with Argo, in: Proceedings of I Annotate 2016, 2016

Batista-Navarro, R., Kontonatsios, G., MihÄƒilÄƒ, C., Thompson, P., Rak, R., Nawaz, R., Korkontzelos, I. and Ananiadou, S., Facilitating the Analysis of Discourse Phenomena in an Interoperable NLP Platform, in: Computational Linguistics and Intelligent Text Processing, pages 559-571, Springer Berlin Heidelberg, 2013

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Tsuruoka, Y., Tsujii, J. and Ananiadou, S., FACTA: a text search engine for finding associated biomedical concepts (2008), in: Bioinformatics, 24:21(2259-60)

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