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Research Article

Large-Scale Event Extraction from Literature with Multi-Level Gene Normalization

  • Sofie Van Landeghem equal contributor,

    equal contributor Contributed equally to this work with: Sofie Van Landeghem, Jari Björne

    Affiliations: Department of Plant Systems Biology, VIB, Gent, Belgium, Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium

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  • Jari Björne equal contributor,

    equal contributor Contributed equally to this work with: Sofie Van Landeghem, Jari Björne

    Affiliations: Turku Centre for Computer Science, Turku, Finland, Department of Information Technology, University of Turku, Finland

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  • Chih-Hsuan Wei,

    Affiliations: National Center for Biotechnology Information, Bethesda, Maryland, United States of America, Department of Computer Science and Information Engineering, National Cheng Kung University, Tainan, Taiwan

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  • Kai Hakala,

    Affiliation: Department of Information Technology, University of Turku, Finland

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  • Sampo Pyysalo,

    Affiliation: National Centre for Text Mining, School of Computer Science, University of Manchester, Manchester, United Kingdom

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  • Sophia Ananiadou,

    Affiliation: National Centre for Text Mining, School of Computer Science, University of Manchester, Manchester, United Kingdom

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  • Hung-Yu Kao,

    Affiliation: Department of Computer Science and Information Engineering, National Cheng Kung University, Tainan, Taiwan

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  • Zhiyong Lu,

    Affiliation: National Center for Biotechnology Information, Bethesda, Maryland, United States of America

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  • Tapio Salakoski,

    Affiliations: Turku Centre for Computer Science, Turku, Finland, Department of Information Technology, University of Turku, Finland

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  • Yves Van de Peer,

    Affiliations: Department of Plant Systems Biology, VIB, Gent, Belgium, Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium

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  • Filip Ginter mail

    ginter@cs.utu.fi

    Affiliation: Department of Information Technology, University of Turku, Finland

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  • Published: April 17, 2013
  • DOI: 10.1371/journal.pone.0055814
  • Published in PLOS ONE

About the Authors

Sofie Van Landeghem, Yves Van de Peer
Department of Plant Systems Biology, VIB, Gent, Belgium
Sofie Van Landeghem, Yves Van de Peer
Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium
Jari Björne, Tapio Salakoski
Turku Centre for Computer Science, Turku, Finland
Jari Björne, Kai Hakala, Tapio Salakoski, Filip Ginter
Department of Information Technology, University of Turku, Finland
Chih-Hsuan Wei, Zhiyong Lu
National Center for Biotechnology Information, Bethesda, Maryland, United States of America
Chih-Hsuan Wei, Hung-Yu Kao
Department of Computer Science and Information Engineering, National Cheng Kung University, Tainan, Taiwan
Sampo Pyysalo, Sophia Ananiadou
National Centre for Text Mining, School of Computer Science, University of Manchester, Manchester, United Kingdom

Corresponding Author

Email: ginter@cs.utu.fi

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: SVL JB SP SA HYK ZL TS YVdP FG. Performed the experiments: SVL JB CHW KH FG. Analyzed the data: SVL JB CHW SP YVdP FG. Wrote the paper: SVL JB SP FG.