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Integrative data mining for analyzing biological networks

Research Project

Project/Area Number 20700269
Research Category

Grant-in-Aid for Young Scientists (B)

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

Principal Investigator

SHIGA Motoki  Kyoto University, 化学研究所, 助教 (20437263)

Project Period (FY) 2008 – 2009
Project Status Completed (Fiscal Year 2009)
Budget Amount *help
¥2,730,000 (Direct Cost: ¥2,100,000、Indirect Cost: ¥630,000)
Fiscal Year 2009: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2008: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Keywordsバイオインフォマティクス / 生物ネットワーク / 遺伝子機能解析 / クラスタリング / 教師有り学習 / データ統合 / 遺伝子発現量 / 遺伝子ネットワーク / データマイニング / 頻出パターンマイニング / 統計的検定 / 半教師あり学習
Research Abstract

For analyzing heterogeneous biological networks and related information sources, I developed integrative data mining methods. My developed new methods are clustering nodes on multiple networks, an annotation method of gene functions, and fast mining methods by combining frequent pattern mining and a statistical hypothesis test.

Report

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

    (13 results)

All 2009 2008

All Journal Article (6 results) (of which Peer Reviewed: 6 results) Presentation (7 results)

  • [Journal Article] Annotating Gene Functions with Integrative Spectral Clustering on Microarray Expressions and Sequences2009

    • Author(s)
      Limin Li, Motoki Shiga, Wai-ki Ching, Hiroshi Mamitsuka
    • Journal Title

      Genome Informatics vol.22

      Pages: 95-120

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Efficiently finding genome-wide three-way gene interactions from transcript- and genotype-data2009

    • Author(s)
      Mitsunori Kayano, Ichigaku Takigawa, Motoki Shiga, Koji Tsuda, Hiroshi Mamitsuka
    • Journal Title

      Bioinformatics vol.25

      Pages: 2735-2743

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Annotating Gene Functions with Integrative Spectral Clustering on Microarray Expressions and Sequences2009

    • Author(s)
      li L., Shiga M., Ching W., Mamitsuka H.
    • Journal Title

      Genome Informatics 22

      Pages: 95-120

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Efficiently finding genome-wide three-way geneinteractions from transcript- and genotype-data2009

    • Author(s)
      Kayano M., Takigawa I., Shiga M., Tsuda K., Mamitsuka H.
    • Journal Title

      Bioinformatics 25

      Pages: 2735-2743

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Mining significant tree patterns in carbohydrate sugar chains2008

    • Author(s)
      Kosuke Hashimoto, Ichigaku Takigawa, Motoki Shiga, Minoru Kanehisa, Hiroshi Mamitsuka
    • Journal Title

      Bioinformatics vol.24

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Mining significant tree patterns in carbohydrate sugar chains2008

    • Author(s)
      K. Hashimoto, I. Takigawa, M. Shiga, M. Kanehisa. H. Mamitsuka
    • Journal Title

      Bioinformatics 24

      Pages: 167-173

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Presentation] Annotating Gene Functions by Spectral Clustering for Combining Gene Expressions and Sequences2009

    • Author(s)
      Limin Li, Motoki Shiga, Wai-ki Ching, Hiroshi Mamitsuka
    • Organizer
      The 20th International Conference on Genome Informatics (GIW)
    • Place of Presentation
      Yokohama, Japan
    • Related Report
      2009 Final Research Report
  • [Presentation] Annotating Gene Functions with Integrative Spectral Clustering on Microarray Expressions and Sequences2009

    • Author(s)
      Limin Li, Motoki Shiga, Wai-ki Ching, Hiroshi Mamitsuka
    • Organizer
      The 9th Annual International Workshop on Bioinformatics and Systems Biology
    • Place of Presentation
      Boston, MA, USA
    • Related Report
      2009 Final Research Report
  • [Presentation] Annotating Gene Functions by Spectral Clustering for Combining Gene Expressions and Sequences2009

    • Author(s)
      Li Limin, Shiga M., Ching W., Mamitsuka H
    • Organizer
      International Conference on Genome Informatics
    • Place of Presentation
      横浜(日本)
    • Related Report
      2009 Annual Research Report
  • [Presentation] Analyzing Histone Codes by a Computational Approach2009

    • Author(s)
      Natsume-Kitatani Y., Shiga M., Mamitsuka H.
    • Organizer
      International Conference on Genome Informatics
    • Place of Presentation
      横浜(日本)
    • Related Report
      2009 Annual Research Report
  • [Presentation] Genome-Wide Three-Way Gene Interactions from Transcript and Genotype Data2009

    • Author(s)
      Kayano M., Takigawa I., Shiga M., Tsuda K., Mamitsuka H.
    • Organizer
      International Conference on Genome Informatics
    • Place of Presentation
      横浜(日本)
    • Related Report
      2009 Annual Research Report
  • [Presentation] Annotating Gene Functions With Integrative Spectral Clustering on Microarray Expressions and Sequences2009

    • Author(s)
      Li Limin, Shiga M., Ching W., Mamitsuka H
    • Organizer
      International Workshop on Bioinformatics and Systems Biology
    • Place of Presentation
      Boston (USA)
    • Related Report
      2009 Annual Research Report
  • [Presentation] Association of SNPs with multiple genes using a nonlinear regression model2008

    • Author(s)
      M. Kayana, I. Takigawa, M. Shiga K. Tsuda, H. Mamitsuka
    • Organizer
      The 2008 Annual Conference of the Japanese Society for Bioinformatics
    • Place of Presentation
      大阪
    • Year and Date
      2008-12-16
    • Related Report
      2008 Annual Research Report

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

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