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Statistical Analysis of Gene Expression Mechanism with Hierarchical Stochastic Model

Research Project

Project/Area Number 23700263
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Sensitivity informatics/Soft computing
Research InstitutionThe University of Tokyo

Principal Investigator

HASEGAWA Yoshihiko  東京大学, 理学系研究科, 特任助教 (20512354)

Project Period (FY) 2011 – 2012
Project Status Completed (Fiscal Year 2012)
Budget Amount *help
¥2,600,000 (Direct Cost: ¥2,000,000、Indirect Cost: ¥600,000)
Fiscal Year 2012: ¥780,000 (Direct Cost: ¥600,000、Indirect Cost: ¥180,000)
Fiscal Year 2011: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Keywords生体生命情報学 / 遺伝子 / 生物物理 / 遺伝子発現系 / 遺伝子発現 / 確率過程
Research Abstract

In the present project, I investigated effects of temporally inhomogeneous noise on gene regulatory systems by using statistical methods and computational simulations. In order to perform the analysis, I developed an analytical approach and applied it to several biological models such as a bistable switch and a ratchet model. The developed method can calculate many statistical properties of systems driven by the temporally inhomogeneous noise. I also studied effects of structural inhomogeneity on the performance of genetic oscillators and showed that the existence of the period mismatch in a pair of coupled oscillators enhances entrainability, i.e. the ability to respond to external periodic stimuli.

Report

(3 results)
  • 2012 Annual Research Report   Final Research Report ( PDF )
  • 2011 Research-status Report
  • Research Products

    (19 results)

All 2013 2012 2011

All Journal Article (5 results) (of which Peer Reviewed: 5 results) Presentation (13 results) Book (1 results)

  • [Journal Article] Enhanced Entrainability of Genetic Oscillators by Period Mismatch2013

    • Author(s)
      Yoshihiko Hasegawa and Masanori Arita
    • Journal Title

      Journal of the Royal Society Interface

      Volume: vol.10 Pages: 20121020-20121020

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Enhanced Entrainability of Genetic Oscillators by Period Mismatch2013

    • Author(s)
      Yoshihiko Hasegawa
    • Journal Title

      Journal of the Royal Society Interface

      Volume: 10 Issue: 81 Pages: 20121020-20121020

    • DOI

      10.1098/rsif.2012.1020

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Fluctuating Noise Drives Brownian Transport2012

    • Author(s)
      Yoshihiko Hasegawa and Masanori Arita
    • Journal Title

      Journal of the Royal Society Interface

      Volume: vol.9 Pages: 3554-3563

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Fluctuating Noise Drives Brownian Transport2012

    • Author(s)
      Yoshihiko Hasegawa
    • Journal Title

      Journal of the Royal Society Interface

      Volume: 9 Issue: 77 Pages: 3554-3563

    • DOI

      10.1098/rsif.2012.0603

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Escape Process and Stochastic Resonance Under Noise Intensity Fluctuation2011

    • Author(s)
      Yoshihiko Hasegawa and Masanori Arita
    • Journal Title

      Physics Letters A

      Volume: vol.375 Pages: 3450-3458

    • Related Report
      2012 Final Research Report 2011 Research-status Report
    • Peer Reviewed
  • [Presentation] Enhanced trainability of genetic oscillators by period mismatch2013

    • Author(s)
      Yoshihiko Hasegawa and Masanori Arita
    • Organizer
      First annual winter q-bio meeting
    • Place of Presentation
      Honolulu, Hawaii, UnitedStates
    • Related Report
      2012 Final Research Report
  • [Presentation] Enhanced trainability of genetic oscillators by period mismatch2013

    • Author(s)
      Yoshihiko Hasegawa
    • Organizer
      FIRST ANNUAL WINTER Q-BIO MEETING
    • Place of Presentation
      Honolulu, Hawaii, United States
    • Related Report
      2012 Annual Research Report
  • [Presentation] Period Mismatch Enhances Entrainability in Genetic Oscillator, Joint Conference on Informatics in Biology2012

    • Author(s)
      Yoshihiko Hasegawa and Masanori Arita
    • Organizer
      Medicine and Pharmacology
    • Place of Presentation
      Tokyo, Japan
    • Related Report
      2012 Final Research Report
  • [Presentation] Langevin Modeling for Extrinsic Fluctuations: Approximation Method and Statistical Properties, International Conference on Stochastic Processes in Systems Biology2012

    • Author(s)
      Yoshihiko Hasegawa and Masanori Arita
    • Organizer
      Genetics & Evolution (ICSP2012)
    • Place of Presentation
      Houston, Texas, United States
    • Related Report
      2012 Final Research Report
  • [Presentation] Hierarchical Noise-Intensity Fluctuations in Langevin Modeling2012

    • Author(s)
      Yoshihiko Hasegawa and Masanori Arita
    • Organizer
      YSM-SPIP
    • Place of Presentation
      Kyoto, Japan
    • Related Report
      2012 Final Research Report
  • [Presentation] Noise-Intensity Fluctuations in Langevin Modeling, International Workshop on Anomalous Statistics2012

    • Author(s)
      Yoshihiko Hasegawa and Masanori Arita
    • Organizer
      Generalized Entropies, and Information Geometry
    • Place of Presentation
      Nara, Japan
    • Related Report
      2012 Final Research Report
  • [Presentation] Modeling extrinsic noise with stochastic intensity noise: Approximation and its statistical properties2012

    • Author(s)
      Yoshihiko Hasegawa and Masanori Arita
    • Organizer
      Bioinformatics week inOdaiba 2011 (BiWO2011)
    • Place of Presentation
      Tokyo, Japan
    • Related Report
      2012 Final Research Report
  • [Presentation] Period Mismatch Enhances Entrainability in Genetic Oscillator2012

    • Author(s)
      長谷川禎彦
    • Organizer
      生命医薬情報学連合大会
    • Place of Presentation
      東京都タワーホール船堀
    • Related Report
      2012 Annual Research Report
  • [Presentation] Langevin Modeling for Extrinsic Fluctuations: Approximation Method and Statistical Properties2012

    • Author(s)
      Yoshihiko Hasegawa
    • Organizer
      International Conference on Stochastic Processes in Systems Biology, Genetics & Evolution (ICSP 2012)
    • Place of Presentation
      Rice University, Houston, United States
    • Related Report
      2012 Annual Research Report
  • [Presentation] Modeling extrinsic noise with stochastic intensity noise: Approximation and its statistical properties2012

    • Author(s)
      長谷川禎彦
    • Organizer
      Bioinformatics week in Odaiba 2011 (BiWO2011)
    • Place of Presentation
      東京(産業総合研究所)
    • Related Report
      2011 Research-status Report
  • [Presentation] Noise-Intensity Fluctuations in Langevin Modeling2012

    • Author(s)
      長谷川禎彦
    • Organizer
      International Workshop on Anomalous Statistics, Generalized Entropies, and Information Geometry
    • Place of Presentation
      奈良(奈良女子大学)
    • Related Report
      2011 Research-status Report
  • [Presentation] Hierarchical Noise-Intensity Fluctuations in Langevin Modeling2012

    • Author(s)
      長谷川禎彦
    • Organizer
      情報統計力学の最前線
    • Place of Presentation
      京都(京都大学)
    • Related Report
      2011 Research-status Report
  • [Presentation] Effects of multiple negative feedback loops in Genetic Oscillators2011

    • Author(s)
      Yoshihiko Hasegawa and Masanori Arita
    • Organizer
      The 2011Joint Conference of CBI & JSBi
    • Place of Presentation
      Kobe, Japan
    • Related Report
      2012 Final Research Report
  • [Book] Programming with Annotated Grammar Estimation, in Chapter 3 of "Genetic Programming-New Approaches and Successful Applications", ISBN 978-953-51-0809-2, InTech2012

    • Author(s)
      Yoshihiko Hasegawa.
    • Related Report
      2012 Final Research Report

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Published: 2011-08-05   Modified: 2019-07-29  

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