Toshihisa Takagi


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Evaluating a dictionary of human phenotype terms focusing on rare diseases
Simon Kocbek | Toyofumi Fujiwara | Jin-Dong Kim | Toshihisa Takagi | Tudor Groza
Proceedings of the 5th International Workshop on Computational Terminology (Computerm2016)

Annotating medical text such as clinical notes with human phenotype descriptors is an important task that can, for example, assist in building patient profiles. To automatically annotate text one usually needs a dictionary of predefined terms. However, do to the variety of human expressiveness, current state-of-the art phenotype concept recognizers and automatic annotators struggle with specific domain issues and challenges. In this paper we present results of an-notating gold standard corpus with a dictionary containing lexical variants for the Human Phenotype Ontology terms. The main purpose of the dictionary is to improve the recall of phenotype concept recognition systems. We compare the method with four other approaches and present results.


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Overview of Genia Event Task in BioNLP Shared Task 2011
Jin-Dong Kim | Yue Wang | Toshihisa Takagi | Akinori Yonezawa
Proceedings of BioNLP Shared Task 2011 Workshop


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GuideLink: A Corpus Annotation System that Integrates the Management of Annotation Guidelines
Kenta Oouchida | Jin-Dong Kim | Toshihisa Takagi | Jun’ichi Tsujii
Proceedings of the 23rd Pacific Asia Conference on Language, Information and Computation, Volume 2

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A Markov Logic Approach to Bio-Molecular Event Extraction
Sebastian Riedel | Hong-Woo Chun | Toshihisa Takagi | Jun’ichi Tsujii
Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task


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Prediction of Protein Sub-cellular Localization using Information from Texts and Sequences.
Hong-Woo Chun | Chisato Yamasaki | Naomi Saichi | Masayuki Tanaka | Teruyoshi Hishiki | Tadashi Imanishi | Takashi Gojobori | Jin-Dong Kim | Jun’ichi Tsujii | Toshihisa Takagi
Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing


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Gene/Protein/Family Name Recognition in Biomedical Literature
Asako Koike | Toshihisa Takagi
HLT-NAACL 2004 Workshop: Linking Biological Literature, Ontologies and Databases