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Drug-drug Interaction Extraction by Representation Learning on Databases

Research Project

Project/Area Number 17K12741
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Intelligent informatics
Research InstitutionToyota Technological Institute

Principal Investigator

Miwa Makoto  豊田工業大学, 工学(系)研究科(研究院), 准教授 (00529646)

Project Period (FY) 2017-04-01 – 2020-03-31
Project Status Completed (Fiscal Year 2019)
Budget Amount *help
¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2019: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2018: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2017: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
Keywords薬物間相互作用 / DrugBank / 関係抽出 / 深層学習 / 表現学習 / BERT / 畳み込みニューラルネットワーク / グラフニューラルネットワーク / グラフ / データベース / 言語処理
Outline of Final Research Achievements

To find important information from increasing the medical and pharmaceutical literature, there is a need for a method that automatically extracts relationship information of drugs, which is essential to R&D and use of drugs. In this research, we improved the conventional extraction method, which used to focus only on textual information, by effectively using the database information that is already discovered and organized. We have developed deep learning methods that utilize information on chemical structures in the database and a large amount of unannotated texts, and improved the conventional method, which showed around 70% in extraction performance, by more than 10% points.

Academic Significance and Societal Importance of the Research Achievements

従来の日本語や英語などの自然言語を対象とした情報抽出の研究では,言語情報のみを利用したものがほとんどであり,データベース情報などは「データベースにあるかどうか」などの特徴として補助的に使われる程度であった.本研究成果は,データベース上に含まれる化学式などの単純には言語と結びつかないような情報を,深層学習を用いて自然言語からの情報抽出に利用可能にし,さらにその情報を使うことで従来手法の精度を向上できたことに意義がある.

Report

(4 results)
  • 2019 Annual Research Report   Final Research Report ( PDF )
  • 2018 Research-status Report
  • 2017 Research-status Report
  • Research Products

    (10 results)

All 2020 2019 2018

All Presentation (10 results) (of which Int'l Joint Research: 4 results)

  • [Presentation] 遠距離教師データを援用した教師あり薬物タンパク質間相互作用抽出2020

    • Author(s)
      飯沼直己, 三輪誠, 佐々木裕
    • Organizer
      言語処理学会第26回年次大会
    • Related Report
      2019 Annual Research Report
  • [Presentation] 二段階学習と概念クラスを用いた医療固有表現の正規化2020

    • Author(s)
      茂里憲之, 辻村有輝, 三輪誠, 佐々木裕
    • Organizer
      言語処理学会第26回年次大会
    • Related Report
      2019 Annual Research Report
  • [Presentation] 薬物データベースを統合的に利用する薬物相互作用抽出2019

    • Author(s)
      浅田真生, 三輪誠, 佐々木裕
    • Organizer
      NLP若手の会 第14回シンポジウム
    • Related Report
      2019 Annual Research Report
  • [Presentation] Using External DB Knowledge in Neural DDI Extraction2019

    • Author(s)
      Masaki Asada, Makoto Miwa and Yutaka Sasaki
    • Organizer
      Third International Workshop on Symbolic-Neural Learning
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] TTI-COIN at n2c2 2019 Track 3: Neural Medical Concept Normalization with Two-Step Training2019

    • Author(s)
      Tomoki Tsujimura, Noriyuki Mori, Masaki Asada, Makoto Miwa and Yutaka Sasaki
    • Organizer
      2019 n2c2/OHNLP Workshop
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] データベースの説明文を利用した薬物相互作用抽出2019

    • Author(s)
      浅田真生, 三輪誠, 佐々木裕
    • Organizer
      言語処理学会第25回年次大会
    • Related Report
      2018 Research-status Report
  • [Presentation] 遠距離教師データを援用した教師有り薬物タンパク質間相互作用抽出2019

    • Author(s)
      矢島雄樹, 三輪誠, 佐々木裕
    • Organizer
      言語処理学会第25回年次大会
    • Related Report
      2018 Research-status Report
  • [Presentation] Enhancing Drug-Drug Interaction Extraction from Texts by Molecular Structure Information2018

    • Author(s)
      Masaki Asada, Makoto Miwa and Yutaka Sasaki
    • Organizer
      the 56th Annual Meeting of the Association for Computational Linguistics (ACL 2018)
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] Extracting Drug-Drug Interactions with Attention CNNs2018

    • Author(s)
      Masaki Asada, Makoto Miwa and Yutaka Sasaki
    • Organizer
      the 2017 Workshop on Biomedical Natural Language Processing (BioNLP 2017)
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research
  • [Presentation] 分子構造を用いた文書からの薬物相互作用抽出2018

    • Author(s)
      浅田真生, 三輪誠, 佐々木裕
    • Organizer
      言語処理学会
    • Related Report
      2017 Research-status Report

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Published: 2017-04-28   Modified: 2021-02-19  

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