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Elucidation of gene transcription of single cell by fusion of topology and ultradiscretization

Research Project

Project/Area Number 15K00397
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Life / Health / Medical informatics
Research InstitutionThe University of Tokyo

Principal Investigator

Ohta Yoshihiro  東京大学, 大学院数理科学研究科, 特任教授 (80436592)

Co-Investigator(Kenkyū-buntansha) 井原 茂男  東京大学, 先端科学技術研究センター, 特任教授 (30345136)
Project Period (FY) 2015-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥4,550,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥1,050,000)
Fiscal Year 2017: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2016: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2015: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Keywords位相幾何学 / 超離散系 / 遺伝子 / 転写 / 時空間 / ダイナミクス / シミュレーション / 時空間解析
Outline of Final Research Achievements

Transcription is a fundamental cellular process in which the RNA polymerase enzymes play a central role. In eukaryotes, RNA polymerase II (RNAPII) is responsible for this process, and genome-wide studies show that transcription by RNAPII is dynamically regulated. We constructed a mathematical model to reproduce cell experiment data and conducted a study to enable prediction of transcription phenomena under conditions impossible in cell experiments.
In this research, we further advance such prediction simulation by using topological geometry for fundamental investigation of diseases closer to deeper transcriptional mechanism change. Furthermore, by conducting computer simulations of transcription at one cell level, not only the average analysis of cell populations so far but also comparison with cell experiments in single cell analysis. We also unveiled unique proprietary mechanisms of cell-specific transcription.

Report

(4 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Research-status Report
  • 2015 Research-status Report
  • Research Products

    (4 results)

All 2017 2016 2015

All Presentation (4 results) (of which Invited: 4 results)

  • [Presentation] AI Smart Robot Network for Biomedical Analysis2017

    • Author(s)
      Yoshihiro Ohta
    • Organizer
      AI in Asia
    • Place of Presentation
      早稲田大学国際会議場井深大 記念ホール
    • Related Report
      2016 Research-status Report
    • Invited
  • [Presentation] Dynamic Approaches to Living System in Cell Biology2016

    • Author(s)
      大田佳宏
    • Organizer
      第68 回日本細胞 生物学会大会 細胞生物学の生命動態研究 シンポジウム
    • Place of Presentation
      京都テル サ大会議室
    • Related Report
      2016 Research-status Report
    • Invited
  • [Presentation] Cellular-automaton model of the cooperative dynamics of RNA polymerase II during the transcription process in human cells2015

    • Author(s)
      大田佳宏
    • Organizer
      文部科学省科学技術試験研究委託事業「数学・数理科学と諸科学・産業との協働によるイノベーション創出のための研究促進プログラム」生命ダイナミクスの数理とその応用
    • Place of Presentation
      東京大学大学院数理科学研究科 大講堂
    • Year and Date
      2015-12-11
    • Related Report
      2015 Research-status Report
    • Invited
  • [Presentation] Ultradiscrete Modeling of Pol II dynamics for gene transcription2015

    • Author(s)
      大田佳宏
    • Organizer
      BMB2015 第38回日本分子生物学会年会、第88回日本生化学会大会 合同大会
    • Place of Presentation
      神戸商工会議所3階 神商ホールB(第27会場)
    • Year and Date
      2015-12-03
    • Related Report
      2015 Research-status Report
    • Invited

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Published: 2015-04-16   Modified: 2019-03-29  

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