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Stable and fast federated search for integration of distributed knowledge of life science data

Research Project

Project/Area Number 17K00434
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Web informatics, Service informatics
Research Institution大学共同利用機関法人情報・システム研究機構(機構本部施設等)

Principal Investigator

Yamaguchi Atsuko  大学共同利用機関法人情報・システム研究機構(機構本部施設等), データサイエンス共同利用基盤施設, 特任准教授 (10346108)

Co-Investigator(Kenkyū-buntansha) 小林 紀郎  国立研究開発法人理化学研究所, 情報システム本部, ユニットリーダー (20415160)
Project Period (FY) 2017-04-01 – 2020-03-31
Project Status Completed (Fiscal Year 2019)
Budget Amount *help
¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000)
Fiscal Year 2019: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2018: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2017: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Keywords連合検索 / SPARQL / 生命科学データ統合 / リンクト・オープン・データ / RDF / 生命科学データベース / リンクトオープンデータ / メタデータ
Outline of Final Research Achievements

In this study, in order to stably and efficiently use life science data provided by SPARQL endpoints distributed on the Web, we developed a federated search system for queries that trace the relationships between classes. To do so, by using information of classes and class-class relationships obtained by crawling each SPARQL endpoint, a federated class graph is constructed. We developed a federated search system that enables efficient searches across SPARQL endpoints by using the information of the path on the federated class graph.

Academic Significance and Societal Importance of the Research Achievements

本研究の成果は,ウェブ上に分散した生命科学分野のRDFデータを柔軟に切り出すシステムLOD Surferの連合検索エンジンとして利用されている.LOD Surferは概念間をたどる連合検索システムを利用するウェブAPIを提供しており,生命科学分野のRDFデータを利用するアプリケーションを,それぞれのSPARQLエンドポイントのデータの内容を意識することなく,容易に構築することができる.

Report

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

    (15 results)

All 2020 2019 2018 2017

All Journal Article (1 results) (of which Peer Reviewed: 1 results) Presentation (14 results) (of which Int'l Joint Research: 5 results)

  • [Journal Article] Investigating Schema Definitions Using RDFS and OWL 2 for RDF Databases in Life Sciences2020

    • Author(s)
      Yamaguchi Atsuko、Kushida Tatsuya、Yamamoto Yasunori、Kozaki Kouji
    • Journal Title

      Communications in Computer and Information Science

      Volume: 1157 Pages: 137-144

    • DOI

      10.1007/978-981-15-3412-6_14

    • ISBN
      9789811534119, 9789811534126
    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Presentation] Semantic Integration of Intrinsically Disordered Proteins and Existing DBs2019

    • Author(s)
      Atsuko Yamaguchi, Hideki Hatanaka, Satoshi Fukuchi, Motonori Ota
    • Organizer
      12th International SWAT4HCLS Workshop
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Umaka data extension: Towards Realisation of Practical SPARQL Endpoint Discovery Service for Life Sciences2019

    • Author(s)
      Norio Kobayashi, Yasunori Yamamoto, Atsuko Yamaguchi
    • Organizer
      12th International SWAT4HCLS Workshop
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Finding the best RDF data by Umaka Suite2019

    • Author(s)
      Yasunori Yamamoto, Atsuko Yamaguchi
    • Organizer
      12th International SWAT4HCLS Workshop
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] LOD Surfer API: クラス間関係に基づく LOD 探索のためのウェブ API2018

    • Author(s)
      山口敦子, 小林紀郎, 桝屋啓志, 山本泰智, 古崎晃司
    • Organizer
      2018年度人工知能学会全国大会(第32回)
    • Related Report
      2018 Research-status Report
  • [Presentation] linked open data を利用するアラインメントビューアの開発2018

    • Author(s)
      藤博幸,山口敦子
    • Organizer
      第18回 日本蛋白質科学会年会
    • Related Report
      2018 Research-status Report
  • [Presentation] Linked Open Dataを利用するアラインメントビューアの開発2018

    • Author(s)
      藤博幸,山口敦子
    • Organizer
      トーゴ―の日シンポジウム2018
    • Related Report
      2018 Research-status Report
  • [Presentation] LOD連合検索の課題と展望ータンパク質関連情報の取得を通じてー2018

    • Author(s)
      山口敦子,藤博幸
    • Organizer
      トーゴ―の日シンポジウム2018
    • Related Report
      2018 Research-status Report
  • [Presentation] Implementing LOD Surfer as a Search System for the Annotation of Multiple Protein Sequence Alignment2018

    • Author(s)
      Atsuko Yamaguchi, Hiroyuki Toh
    • Organizer
      The 8th Joint International Semantic Technology Conference (JIST2018)
    • Related Report
      2018 Research-status Report
  • [Presentation] LOD Surfer Metadata: Essential LOD catalogue data for traversing life-science LOD amongst multiple SPARQL endpoints2018

    • Author(s)
      Norio Kobayashi, Yasunori Yamamoto
    • Organizer
      The 11th International Conference Semantic Web Applications and Tools for Life Sciences (SWAT4HCLS 2018)
    • Related Report
      2018 Research-status Report
  • [Presentation] Annotation of Proteins from LOD for a Viewer of Multiple Protein Sequence Alignment2018

    • Author(s)
      Atsuko Yamaguchi, Hiroyuki Toh
    • Organizer
      The 11th International Conference Semantic Web Applications and Tools for Life Sciences (SWAT4HCLS 2018)
    • Related Report
      2018 Research-status Report
  • [Presentation] ライフサイエンスのRDFデータベースにおけるスキーマ定義の現状分析2018

    • Author(s)
      山口敦子, 櫛田達矢, 山本泰智, 古崎晃司
    • Organizer
      第47回セマンティックウェブとオントロジー研究会
    • Related Report
      2018 Research-status Report
  • [Presentation] LOD Surfer API: クラス間関係を用いたLODからの情報抽出Web API2018

    • Author(s)
      山口敦子, 小林紀郎, 臼田大輝, 桝屋啓志, 山本泰智, 古崎晃司
    • Organizer
      第44回セマンティックウェブとオントロジー研究会
    • Related Report
      2017 Research-status Report
  • [Presentation] Semantic Graph Analysis for Federated LOD Surfing in Life Sciences2017

    • Author(s)
      Atsuko Yamaguchi, Kouji Kozaki, Yasunori Yamamoto, Hiroshi Masuya, Norio Kobayashi
    • Organizer
      The 7th Joint International Semantic Technology Conference (JIST 2017)
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research
  • [Presentation] LOD Surfer API: Web API for LOD Surfing Using Class-Class Relationships in Life Sciences2017

    • Author(s)
      Atsuko Yamaguchi, Kouji Kozaki, Yasunori Yamamoto, Hiroshi Masuya, Norio Kobayashi
    • Organizer
      10th International Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4HCLS 2017)
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research

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

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