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Reconstruction of Metabolic Network for Extracting Design Principles of Natural Products

Research Project

Project/Area Number 20710156
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeSingle-year Grants
Research Field ゲノム情報科学
Research InstitutionKyoto University

Principal Investigator

ARAKI Michihiro  Kyoto University, 先端技術グローバルリーダー養成ユニット, 准教授 (40396867)

Project Period (FY) 2008 – 2010
Project Status Completed (Fiscal Year 2010)
Budget Amount *help
¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2010: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2009: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2008: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Keywords代謝工学 / 合成生物学 / バイオインフォマティクス / ケモインフォマティクス / 生合成 / 生体生命情報学 / ゲノム / 生物・生体工学 / synthetic biology / バイオラクノロジー
Research Abstract

It is necessary for the design of a natural compound to extract design information recorded in the structure of the compound, and to build a design frame based on a systematic reconstruction of metabolic network. We examined the way to express natural compounds, to reconstruct metabolic network information, and to analyze the metabolic network. The systematic way to represent compounds proposed in this study resulted in better reflecting biosynthetic information than conventional methods, which could propose the design route for any natural compound.

Report

(4 results)
  • 2010 Annual Research Report   Final Research Report ( PDF )
  • 2009 Annual Research Report
  • 2008 Annual Research Report
  • Research Products

    (18 results)

All 2011 2010 2009 2008

All Journal Article (9 results) (of which Peer Reviewed: 9 results) Presentation (7 results) Patent(Industrial Property Rights) (2 results)

  • [Journal Article] A Web Tool for Expression Pattern-Based Data Retrieval and Relevant Network Discovery fromvast Public Microarray Database2009

    • Author(s)
      Feng, C., Araki, M., etal.
    • Journal Title

      GIW2009,PosterAbstracts P056

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] GEM-TREND : a web tool for gene expression datamining toward relevant network discovery2009

    • Author(s)
      Feng, C., Araki, M., etal.
    • Journal Title

      BMCG enomics 10

      Pages: 411-411

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Extraction and analysis of chemical modification patterns in drugdevelopment2009

    • Author(s)
      Shigemizu, D., Araki, M., Okuda, S., etal.
    • Journal Title

      Journal of Chemical Information and Modeling 49(4)

      Pages: 1122-1129

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Analysis of Chemical Modification Patterns Extracted from KEGG Drug Structure Maps2009

    • Author(s)
      Shigemizu, D., Araki, M., Okuda, S., etal.
    • Journal Title

      IBSB2009 Boston

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] GEM-TREND : a web tool for gene expression data mining toward relevant network discovery.2009

    • Author(s)
      Feng C, Araki M, Kunimoto R, Tamon A, Makiguchi H, Niijima S, Tsujimoto G, Okuno Y.
    • Journal Title

      BMC Genomics 10

      Pages: 411-411

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Extraction and analysis of chemical modification patterns in drug development.2009

    • Author(s)
      Shigemizu D, Araki M, Okuda S, Goto S, Kanehisa M.
    • Journal Title

      J Chem Inf Model. 49(4)

      Pages: 1122-1129

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Predictionof drug-target interaction networks from the integration of chemical and genomic spaces2008

    • Author(s)
      Yamanishi, Y., Araki, M., Gutteridge, A., etal.
    • Journal Title

      Bioin for matics(ISMB2008) 24

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] KEGG for linking genomes to life and the environment2008

    • Author(s)
      Kanehisa, M., Araki, M., etal.
    • Journal Title

      Nucleic Acids Research 36

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Prediction of drug-target interaction networks from the integration of chemical and genomic spaces2008

    • Author(s)
      Yamanishi, Y., Araki, M., Gutteridge, A., Honda, W., and Kanehisa, M.
    • Journal Title

      Bioinformatics 24

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Presentation] 合成生物事始め2011

    • Author(s)
      荒木通啓
    • Place of Presentation
      三菱化学科学技術センター横浜
    • Year and Date
      2011-03-05
    • Related Report
      2010 Final Research Report
  • [Presentation] retrobiosynthesisに向けた天然化合物のアーキテクチャ解析2010

    • Author(s)
      荒木通啓
    • Organizer
      第3回医薬品研究会
    • Place of Presentation
      東京大学医科学研究所
    • Year and Date
      2010-08-02
    • Related Report
      2010 Annual Research Report 2010 Final Research Report
  • [Presentation] 医薬品-臨床知識統合データベースの構築2010

    • Author(s)
      馮春来、荒木通啓、他
    • Organizer
      日本薬学会第130年会
    • Place of Presentation
      岡山
    • Year and Date
      2010-03-29
    • Related Report
      2010 Final Research Report 2009 Annual Research Report
  • [Presentation] 医薬品-疾病作用情報データベース2009

    • Author(s)
      荒木通啓、馮春来, 多門啓子, 薮内弘昭, 奥野恭史
    • Organizer
      日本薬学会129年会
    • Place of Presentation
      京都
    • Year and Date
      2009-03-27
    • Related Report
      2008 Annual Research Report
  • [Presentation] 医薬品-疾病作用情報データベース2009

    • Author(s)
      荒木通啓、馮春来、他
    • Organizer
      日本薬学会第129年会
    • Place of Presentation
      京都
    • Year and Date
      2009-03-26
    • Related Report
      2010 Final Research Report
  • [Presentation] 統合型薬学情報ナビゲーションシステムの開発2009

    • Author(s)
      多門啓子、牧口大旭、荒木通啓、他
    • Organizer
      日本薬学会第129年会
    • Place of Presentation
      京都
    • Year and Date
      2009-03-26
    • Related Report
      2010 Final Research Report
  • [Presentation] ケミカルゲノミクス情報を用いた標的タンパク質の予測法の開発2009

    • Author(s)
      藤田淳人、藪内弘昭、小川哲平、荒木通啓、他
    • Organizer
      日本薬学会第129年会
    • Place of Presentation
      京都
    • Year and Date
      2009-03-26
    • Related Report
      2010 Final Research Report
  • [Patent(Industrial Property Rights)] 合成経路作成装置、合成経路作成方法及び合成経路作成プログラムならびに3‐ヒドロキシプロピオン酸の製造方法2010

    • Inventor(s)
      荒木通啓、宮奥康平、谷口岳志
    • Industrial Property Rights Holder
      三菱化学株式会社
    • Filing Date
      2010-12-17
    • Related Report
      2010 Final Research Report
  • [Patent(Industrial Property Rights)] 合成経路作成装置、合成経路作成プログラムならびに3-ヒドロキシプロピオン酸の製造方法2010

    • Inventor(s)
      荒木通啓、宮奥康平、谷口岳志
    • Industrial Property Rights Holder
      荒木通啓、宮奥康平、谷口岳志
    • Industrial Property Number
      2010-281794
    • Filing Date
      2010-12-17
    • Related Report
      2010 Annual Research Report

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

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