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International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics

CIBB 2012: Computational Intelligence Methods for Bioinformatics and Biostatistics pp 81–94Cite as

A Method of Extracting Sentences Containing Protein Function Information from Articles by Iterative Learning with Feature Update

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Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 7845))

Abstract

Proteins are important macromolecules in living systems and serve various functions in almost all biological processes. Protein function information is reported in many scientific articles. Extraction of the function information from the articles is useful for drug discovery, understanding of life phenomenon, and so on. However, it is infeasible to extract the function information manually from a number of articles. In this paper, we propose a method of extracting sentences containing protein function information by iterative learning with feature update. In this method, we use a classifier in order to distinguish the sentences containing the function information from the other sentences, and introduce a semi-automatic procedure, in which a new classifier is reconstructed based on the user’s feedback for the previous classified results. In the experiment with twelve articles as feedback data, it was confirmed that F-measure was improved by iterating learning without getting the negative effect of the feedback.

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Author information

Authors and Affiliations

  1. Graduate School of Science and Technology, Kobe University, 1-1, Rokkodai, Nada, Kobe, 657–8501, Japan

    Kazunori Miyanishi

  2. Graduate School of System Informatics, Kobe University, 1-1, Rokkodai, Nada, Kobe, 657–8501, Japan

    Takenao Ohkawa

Authors
  1. Kazunori Miyanishi
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  2. Takenao Ohkawa
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Editor information

Editors and Affiliations

  1. Center for Biostatistics, TMHRI, Weill Cornell Medical College, ll,, Cornell University,, 6565 Fannin Street, Mary Gibbs Jones Ha, 77030, Houston, TX, USA

    Leif E. Peterson

  2. DIBRIS, University of Genova, Via Dodecaneso 35, 16146, Genova, Italy

    Francesco Masulli

  3. Sbarro Institute for Cancer Research and Moleculare Medicine, Center for Biotechnology, Temple University, 1900 N 12th Street, BioLife Science Bldg, 19122, Philadelphia, PA, USA

    Giuseppe Russo

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Miyanishi, K., Ohkawa, T. (2013). A Method of Extracting Sentences Containing Protein Function Information from Articles by Iterative Learning with Feature Update. In: Peterson, L.E., Masulli, F., Russo, G. (eds) Computational Intelligence Methods for Bioinformatics and Biostatistics. CIBB 2012. Lecture Notes in Computer Science(), vol 7845. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-38342-7_8

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  • DOI: https://doi.org/10.1007/978-3-642-38342-7_8

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-38341-0

  • Online ISBN: 978-3-642-38342-7

  • eBook Packages: Computer ScienceComputer Science (R0)

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