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Database Integration for Multi-scale Simulation

Research Project

Project/Area Number 20800025
Research Category

Grant-in-Aid for Young Scientists (Start-up)

Allocation TypeSingle-year Grants
Research Field Bioinformatics/Life informatics
Research InstitutionOsaka University

Principal Investigator

KIDO Yoshiyuki  Osaka University, 臨床医工学融合研究教育センター, 特任助教(常勤) (70506310)

Project Period (FY) 2008 – 2009
Project Status Completed (Fiscal Year 2009)
Budget Amount *help
¥2,249,000 (Direct Cost: ¥1,730,000、Indirect Cost: ¥519,000)
Fiscal Year 2009: ¥936,000 (Direct Cost: ¥720,000、Indirect Cost: ¥216,000)
Fiscal Year 2008: ¥1,313,000 (Direct Cost: ¥1,010,000、Indirect Cost: ¥303,000)
Keywordsマルチスケールシミュレーション / フィジオーム / オントロジー / データベース統合 / 統合データベース
Research Abstract

Multi-scale simulation is mainly aimed at integrating scientific knowledge through computational methods and across different physiological levels ; ranging from molecular level, genomic level, cellular level, organ level up to human body part level. In this study, we aim to integrate among some databases using ontologies such as Gene Ontology, MeSH Term and other related ontologies.

Report

(3 results)
  • 2009 Annual Research Report   Final Research Report ( PDF )
  • 2008 Annual Research Report
  • Research Products

    (17 results)

All 2010 2009 2008

All Journal Article (5 results) (of which Peer Reviewed: 5 results) Presentation (12 results)

  • [Journal Article] A Data Management and Visualization System towards Online Microscopic Imaging2009

    • Author(s)
      Eisaku Sakane, Yoshiyuki Kido, Susumu Date, Shinji Simojo
    • Journal Title

      Proc of MIPRO Vol.1

      Pages: 139-148

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] A Method for Efficient Execution of Bioinformatics Workflows2009

    • Author(s)
      Junya Seo, Yoshiyuki Kido, Shigeto Seno, Yoichi Takenaka, Hideo Matsuda
    • Journal Title

      Genome Informatics Vol.23

      Pages: 139-148

    • Related Report
      2009 Annual Research Report 2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] A Data Management and Visualization System towards Online Microscopic Imaging2009

    • Author(s)
      Eisaku Sukane, Yoshiyuki Kido, Susumu Date, Shinji Simojo
    • Journal Title

      Proceedings of 32nd International Convention MIPRO Vol.1

      Pages: 335-340

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Specifications of insilico ML 1. 0: A Multilevel Biophysical Model Description Language2008

    • Author(s)
      Yoshiyuki Asai, Yasuyuki Suzuki, Yoshiyuki Kido, et. al. (員数:18名中3番目)
    • Journal Title

      The Journal of Physiological Sciences Vol.58,No.7

      Pages: 447-458

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Specifications of insilico ML 1.0 : A Multilevel Biophysical Model Description Language2008

    • Author(s)
      Yoshiyuki Asai, Yasuyuki Suzuki, Yoshiyuki Kido, et al.
    • Journal Title

      The Journal of Physiological Sciences Vol. 58 No. 7

      Pages: 447-458

    • NAID

      10027710778

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Presentation] マルチスケールシミュレーションのためのWebサービスとデータ探索に関する研究2010

    • Author(s)
      木戸善之
    • Organizer
      情報処理学会研究報告バイオ情報学研究会
    • Place of Presentation
      石川
    • Year and Date
      2010-03-05
    • Related Report
      2009 Final Research Report
  • [Presentation] マルチスケールシミュレーションのためのWebサービスとデータ探索に関する研究2010

    • Author(s)
      木戸善之
    • Organizer
      情報処理学会研究報告バイオ情報学研究会
    • Place of Presentation
      北陸先端科学技術大学院大学
    • Year and Date
      2010-03-05
    • Related Report
      2009 Annual Research Report
  • [Presentation] insilicoML and integrated environment2009

    • Author(s)
      Yoshiyuki Asai, Yoshiyuki Kido, et. al.
    • Organizer
      XXXVI International Congress of Physiological Sciences
    • Place of Presentation
      京都
    • Related Report
      2009 Annual Research Report 2009 Final Research Report
  • [Presentation] Discovery of relation between modeling data using in-silico modeling ontology and meta-ontology2009

    • Author(s)
      Yoshiyuki Kido
    • Organizer
      XXXVI International Congress of Physiological Sciences
    • Place of Presentation
      京都
    • Related Report
      2009 Annual Research Report 2009 Final Research Report
  • [Presentation] A Method for Making a New Reference Set of PDB Entries for Retrieving Protein 3D Structures with Structural Annotations2008

    • Author(s)
      Masahiko Hamada, Yoshiyuki Kido, et. al.
    • Organizer
      The 2008 Annual Conference of JSBi
    • Place of Presentation
      大阪
    • Year and Date
      2008-12-15
    • Related Report
      2009 Final Research Report
  • [Presentation] A Method for Reducing Bounds of Compound Search by Dividing Structure Key2008

    • Author(s)
      Takashi Shimizu, Yoshiyuki Kido, et. al.
    • Organizer
      The 2008 Annual Conference of JSBi
    • Place of Presentation
      大阪
    • Year and Date
      2008-12-15
    • Related Report
      2009 Final Research Report
  • [Presentation] A Method for Reducing Bounds of Compound Search by Dividing Structure Key2008

    • Author(s)
      Takashi Shimizu
    • Organizer
      The 2008 Annual Conference of the Japanese Society for Bioinformatics
    • Place of Presentation
      千里ライフサイエンスセンター, 大阪
    • Year and Date
      2008-12-15
    • Related Report
      2008 Annual Research Report
  • [Presentation] A Method for Making a New Reference Set of PDB Entriesfor Retrieving Protein 3D Structures with Structural Annotations2008

    • Author(s)
      Masahiko Hamada
    • Organizer
      The 2008 Annual Conference of the Japanese Society for Bioinformatics
    • Place of Presentation
      千里ライフサイエンスセンター, 大阪
    • Year and Date
      2008-12-15
    • Related Report
      2008 Annual Research Report
  • [Presentation] A Biological Analysis System using Data-Staging with GridFTP2008

    • Author(s)
      Yoshiyuki Kido
    • Organizer
      The 5th Korea-Japan Grid Symposium
    • Place of Presentation
      Jeju, Korea
    • Year and Date
      2008-10-10
    • Related Report
      2009 Final Research Report
  • [Presentation] A Biological Analysis System using Data-Staging with GridFTP2008

    • Author(s)
      Yoshiyuki Kido
    • Organizer
      The 5^<th> Korea-Japan Grid Symposium
    • Place of Presentation
      Jeju, Korea
    • Year and Date
      2008-10-10
    • Related Report
      2008 Annual Research Report
  • [Presentation] ISMO: in-Silico Modeling Ontologyの提案2008

    • Author(s)
      木戸善之
    • Organizer
      生体医工学シンポジウム2008
    • Place of Presentation
      大阪
    • Year and Date
      2008-09-19
    • Related Report
      2009 Final Research Report
  • [Presentation] ISMO : in-Silico Modeling Ontologyの提案2008

    • Author(s)
      木戸善之
    • Organizer
      生体医工学シンポジウム2008 (BMES2008)
    • Place of Presentation
      大阪大学
    • Year and Date
      2008-09-19
    • Related Report
      2008 Annual Research Report

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Published: 2008-04-01   Modified: 2016-04-21  

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