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The role of the ion channel distribution in dendritic computation of the cerebellar Purkinje cell

Research Project

Project/Area Number 15K06725
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Neurophysiology / General neuroscience
Research InstitutionOkinawa Institute of Science and Technology Graduate University

Principal Investigator

Hong Sungho  沖縄科学技術大学院大学, 計算脳科学ユニット, 研究員 (90600205)

Co-Investigator(Kenkyū-buntansha) 高嶋 聰  沖縄科学技術大学院大学, 計算脳科学ユニット, 研究員 (00374190)
Chen Weiliang  沖縄科学技術大学院大学, 計算脳科学ユニット, 研究員 (80596594)
Research Collaborator DE SCHUTTER Erik  
Project Period (FY) 2015-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2017: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2016: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2015: ¥2,730,000 (Direct Cost: ¥2,100,000、Indirect Cost: ¥630,000)
Keywords計算論的神経科学 / 分子細胞神経科学 / プルキンエ細胞 / 樹状突起 / 神経情報処理 / イオンチャネル / Parallel STEPS simulator / Cerebellar Purkinje cell / Large scale simulation / Calcium bursting / Dendrite / Neuron / Morphology / Computational model / Simulation / Ion channel
Outline of Final Research Achievements

We developed computational tools, methods, and simulation models to study the effect of stochastic ion channel interactions in dendrites, using the cerebellar Purkinje cell as a primary model. We developed a novel algorithm to discover “functional subunits” in a dendritic tree, based on the extent of depolarization by a synaptic input within each subunit. This demonstrated that neuronal morphology impacts how synaptic inputs and ion channels interact with each other via membrane potential, leading to nonlinear computation. We also developed a program to build a model of an ion channel from experimental data, by using the evolutionary algorithm. Finally, we developed a parallelized version of the STEPS simulator that can simulate stochastic processes in a neuron with complex 3D geometry, by using a cluster supercomputer. Using this, we ran a simulation of a Purkinje cell with a full dendritic tree, which vividly showed regional details of how stochasticity impacts cellular dynamics.

Report

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

    (11 results)

All 2018 2017 2016 Other

All Journal Article (4 results) (of which Int'l Joint Research: 4 results,  Peer Reviewed: 4 results,  Open Access: 4 results) Presentation (6 results) (of which Int'l Joint Research: 6 results) Remarks (1 results)

  • [Journal Article] The choroid plexus is an important circadian clock component2018

    • Author(s)
      Myung Jihwan、Schmal Christoph、Hong Sungho、Tsukizawa Yoshiaki、Rose Pia、Zhang Yong、Holtzman Michael J.、De Schutter Erik、Herzel Hanspeter、Bordyugov Grigory、Takumi Toru
    • Journal Title

      Nature Communications

      Volume: 9 Issue: 1 Pages: 1062-1062

    • DOI

      10.1038/s41467-018-03507-2

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Spatiotemporal network coding of physiological mossy fiber inputs by the cerebellar granular layer2017

    • Author(s)
      Sudhakar Shyam Kumar、Hong Sungho、Raikov Ivan、Publio Rodrigo、Lang Claus、Close Thomas、Guo Daqing、Negrello Mario、De Schutter Erik
    • Journal Title

      PLOS Computational Biology

      Volume: 13 Issue: 9 Pages: e1005754-e1005754

    • DOI

      10.1371/journal.pcbi.1005754

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Time to Bring Single Neuron Modeling into 3D2017

    • Author(s)
      Chen Weiliang、De Schutter Erik
    • Journal Title

      Neuroinformatics

      Volume: 15 Issue: 1 Pages: 1-3

    • DOI

      10.1007/s12021-016-9321-x

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Parallel STEPS: Large Scale Stochastic Spatial Reaction-Diffusion Simulation with High Performance Computers2017

    • Author(s)
      Chen Weiliang、De Schutter Erik
    • Journal Title

      Frontiers in Neuroinformatics

      Volume: 11 Pages: 13-15

    • DOI

      10.3389/fninf.2017.00013

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] STEPS 3: integrating stochastic molecular and electrophysiological neuron models in parallel simulation2017

    • Author(s)
      Weiliang Chen, Iain Hepburn, Francesco Casalegno, Adrien Devresse, Aleksandr Ovcharenko, Fernando Pereira, Fabien Delalondre and Erik De Schutter
    • Organizer
      26th Annual Computational Neuroscience Meeting (CNS2017)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Heterogeneous layers stabilize propagation of a multiplexed spike signal in a feedforward network2017

    • Author(s)
      Dongqi Han and Sungho Hong
    • Organizer
      26th Annual Computational Neuroscience Meeting (CNS2017)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Heterogeneous layers stabilize propagation of a spike signal in a feedforward network2017

    • Author(s)
      Sungho Hong, Dongqi Han, and Erik De Schutter
    • Organizer
      Neuroscience 2017 (SfN 2017)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Dendritic morphology determines how dendrites are organized into functional subunits2016

    • Author(s)
      洪 聖昊
    • Organizer
      CNS meeting 2016
    • Place of Presentation
      Jeju, Korea
    • Year and Date
      2016-07-02
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Presentation] Dendritic morphology determines how dendrites are organized into functional subunits2016

    • Author(s)
      洪 聖昊
    • Organizer
      Computational Neuroscience Meeting 2016
    • Place of Presentation
      Jeju, South Korea
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Presentation] Impact of dendritic morphology on functional subunits in dendrites2016

    • Author(s)
      洪 聖昊
    • Organizer
      Neuroscience 2016
    • Place of Presentation
      San Diego, CA, USA
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Remarks] STEPS 3.3.0

    • URL

      https://github.com/CNS-OIST/STEPS/releases

    • Related Report
      2017 Annual Research Report

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

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