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Theory and Experimental Setup for Set based Model Identification of Genetic Circuits using Frequency Response

Research Project

Project/Area Number 16H07175
Research Category

Grant-in-Aid for Research Activity Start-up

Allocation TypeSingle-year Grants
Research Field Control engineering/System engineering
Research InstitutionKeio University

Principal Investigator

Hori Yutaka  慶應義塾大学, 理工学部(矢上), 助教 (10778591)

Project Period (FY) 2016-08-26 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥2,990,000 (Direct Cost: ¥2,300,000、Indirect Cost: ¥690,000)
Fiscal Year 2017: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2016: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Keywords遺伝子回路 / 確率システム / システム同定 / 凸最適化 / マイクロ流路 / 制御工学 / マイクロ・ナノデバイス / 生物物理
Outline of Final Research Achievements

This research project developed a combined theoretical and experimental platform for modeling synthetic biomolecular reactions (genetic circuits) in microbe cells using a systems engineering approach. The focus of the project was particularly on the quantitative characterization of the uncertainty of biomolecular reactions that comes from the sparsity of available measurements and stochastic noise in reaction dynamics. We proposed optimization-based parameter identification and design methodologies for model-based development of biomolecular systems. We also developed a microfluidic platform for actuating genetic circuits using dynamic chemical inputs. The developed platform allows for characterization of the frequency response of genetic circuits, which will be helpful to improve mathematical models.

Report

(3 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Annual Research Report
  • Research Products

    (8 results)

All 2018 2017

All Journal Article (1 results) (of which Peer Reviewed: 1 results) Presentation (7 results) (of which Int'l Joint Research: 1 results,  Invited: 1 results)

  • [Journal Article] Optimization-based synthesis of stochastic biocircuits with statistical specifications2018

    • Author(s)
      Sakurai Yuta、Hori Yutaka
    • Journal Title

      Journal of The Royal Society Interface

      Volume: 15 Issue: 138 Pages: 20170709-20170709

    • DOI

      10.1098/rsif.2017.0709

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Presentation] 生体分子反応を動的に制御するためのマイクロアクチュエータ2018

    • Author(s)
      若命彩香, 堀豊
    • Organizer
      第1回分子ロボティクス年次大会
    • Related Report
      2017 Annual Research Report
  • [Presentation] ガウス過程状態空間モデルを用いたデータ駆動型の遺伝子回路モデリング2018

    • Author(s)
      上杉周平, 堀豊
    • Organizer
      第5回計測自動制御学会制御部門マルチシンポジウム
    • Related Report
      2017 Annual Research Report
  • [Presentation] 統計的仕様に基づく遺伝子回路のロバスト設計2017

    • Author(s)
      堀豊, 櫻井裕大
    • Organizer
      第60回自動制御連合講演会
    • Related Report
      2017 Annual Research Report
  • [Presentation] A convex approach to steady state moment analysis for stochastic chemical reactions2017

    • Author(s)
      Yuta Sakurai and Yutaka Hori
    • Organizer
      IEEE 56th Annual Conference on Decision and Control
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 遺伝子回路を動的制御するためのマイクロリアクタの構築2017

    • Author(s)
      石川真菜,堀豊
    • Organizer
      第4回計測自動制御学会制御部門マルチシンポジウム
    • Related Report
      2016 Annual Research Report
  • [Presentation] 凸最適化による確率的化学反応のモーメント解析2017

    • Author(s)
      櫻井裕大,堀豊
    • Organizer
      第4回計測自動制御学会制御部門マルチシンポジウム
    • Related Report
      2016 Annual Research Report
  • [Presentation] 遺伝子回路のシステム工学:設計論と構築技術2017

    • Author(s)
      堀豊
    • Organizer
      第4回計測自動制御学会制御部門マルチシンポジウム
    • Related Report
      2016 Annual Research Report
    • Invited

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Published: 2016-09-02   Modified: 2019-03-29  

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