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Computational framework to infer potential novel drug-targets based on network analysis and comparative genomic analysis

Research Project

Project/Area Number 25870197
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field System genome science
Life / Health / Medical informatics
Research InstitutionInstitute of Physical and Chemical Research (2015-2016)
Tokyo Medical and Dental University (2013-2014)

Principal Investigator

Hase Takeshi  国立研究開発法人理化学研究所, 統合生命医科学研究センター, 客員研究員 (70569285)

Project Period (FY) 2013-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2015: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2014: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2013: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Keywords生命情報 / システムバイオロジー / ネットワークバイオロジー / 機械学習 / タンパク質ネットワーク / 比較ゲノム / 薬剤標的分子 / ネットワーク進化 / 蛋白質ネットワーク
Outline of Final Research Achievements

Protein-protein interaction networks are useful resources for investigating gene functions and potential drug targets. In this project, we mainly conducted two studies. ①By using genome-wide data of protein-protein interactions, we developed a computational framework to infer potential drug-target genes. Then, we used the framework and inferred potential novel therapeutic targets for Alzheimer's disease, rheumatoid arthritis, and several cancerous diseases. ②We investigated differences and similarities in the structure of protein-protein interaction networks among various species. In order to investigate potential evolutionary mechanisms that can explain the differences and similarities, we conducted comparative genome analyses and computer simulations that use network growth model based on gene duplications.

Report

(5 results)
  • 2016 Annual Research Report   Final Research Report ( PDF )
  • 2015 Research-status Report
  • 2014 Research-status Report
  • 2013 Research-status Report
  • Research Products

    (9 results)

All 2017 2016 2015 2014

All Journal Article (1 results) (of which Peer Reviewed: 1 results,  Acknowledgement Compliant: 1 results) Presentation (8 results) (of which Int'l Joint Research: 3 results,  Invited: 1 results)

  • [Journal Article] Identification of drug-target modules in the human protein-protein interaction network2014

    • Author(s)
      Takeshi Hase, Kaito Kikuchi, Samik Ghosh, Hiroaki Kitano, Hiroshi Tanaka
    • Journal Title

      Artificial Life and Robotics

      Volume: 19 Issue: 4 Pages: 406-413

    • DOI

      10.1007/s10015-014-0178-5

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Presentation] A neural network based text mining approach for inference of protein-protein interaction networks.2017

    • Author(s)
      Takeshi Hase, Samik Ghosh, Ayako Yachie, and Hiroaki Kitano
    • Organizer
      2nd International Symposium on BioComplexit
    • Place of Presentation
      B-Con PLAZA(大分県別府市)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] A machine-learning approach that leverages information from genome-wide molecular interaction networks towards identification of novel drug-target2016

    • Author(s)
      Takeshi Hase, Samik Ghosh, Kaito Kikuchi, Hiroaki Kitano, and Hiroshi Tanaka
    • Organizer
      International Conference on Systems Biology 2016
    • Place of Presentation
      Barcelona Palau de Congressos, Barcelona, Spain
    • Year and Date
      2016-09-17
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 多様な生物種におけるタンパク質間相互作用ネットワーク構造の差異とその進化2016

    • Author(s)
      長谷武志、新村芳人
    • Organizer
      日本進化学会第18回大会
    • Place of Presentation
      東京工業大学大岡山キャンパス(東京都目黒区)
    • Year and Date
      2016-08-25
    • Related Report
      2016 Annual Research Report
  • [Presentation] A computational approach to prioritize drug-target genes in the human protein interaction network2016

    • Author(s)
      Takeshi Hase, Kaito Kikuchi, Samik Ghosh, Hiroshi Tanaka, and Hiroaki Kitano
    • Organizer
      1st International Symposium on BioComplexity
    • Place of Presentation
      B-Con PLAZA, Beppu, Ohita, Japan
    • Year and Date
      2016-01-21
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Presentation] 生体分子間相互作用ネットワークの情報を用いたドラッグリポジショニングの可能性について2016

    • Author(s)
      長谷武志
    • Organizer
      Chem-Bio Informatics (CBI)学会2016年度年大会
    • Place of Presentation
      タワーホール船堀(東京都江戸川区)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Controllability of protein-protein interaction networks and their relationships with drug-targets, essential genes, and degree connectivities2015

    • Author(s)
      Takeshi Hase, Kaito Kikuchi, Samik Ghosh, Hiroaki Kitano, Hiroshi Tanaka
    • Organizer
      20th International Symposium on Artificial Life and Robotics (AROB 20th 2015)
    • Place of Presentation
      B-Con Plaza, Beppu, Japan
    • Year and Date
      2015-01-21 – 2015-01-23
    • Related Report
      2014 Research-status Report
  • [Presentation] A network guided approach towards identification of novel drug targets in MRSA2015

    • Author(s)
      Kaito Kikuchi, Takeshi Hase, Samik Ghosh, Hiroaki Kitano
    • Organizer
      8th Asian Young Researchers Conference on Computational and Omics Biology (AYRCOB)
    • Place of Presentation
      International Conference Hall, Microelectronics and Information Systems Research Center, National Chiao-Tung University, Taiwan
    • Year and Date
      2015-01-19 – 2015-01-20
    • Related Report
      2014 Research-status Report
  • [Presentation] Identification of drug-target modules in the human protein-protein interaction network2014

    • Author(s)
      長谷 武志、菊池 魁人、サッミク ゴーシュ、北野 宏明、田中 博
    • Organizer
      International Symposium on Artificial Life and Robotics
    • Place of Presentation
      B-Con Plaza、別府、日本
    • Related Report
      2013 Research-status Report

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Published: 2014-07-25   Modified: 2019-07-29  

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