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4D data analysis and simulation study on the relationship between extracellular signaling and morphogenesis

Research Project

Project/Area Number 17KK0007
Research Category

Fund for the Promotion of Joint International Research (Fostering Joint International Research)

Allocation TypeMulti-year Fund
Research Field Life / Health / Medical informatics
Research InstitutionAkita Prefectural University

Principal Investigator

Ishimoto Yukitaka  秋田県立大学, システム科学技術学部, 教授 (30391858)

Project Period (FY) 2018 – 2022
Project Status Completed (Fiscal Year 2022)
Budget Amount *help
¥15,210,000 (Direct Cost: ¥11,700,000、Indirect Cost: ¥3,510,000)
Keywords生体情報定量化 / コンピュータシミュレーション / 細胞・組織・器官 / データ解析 / 発生・分化 / 生体情報
Outline of Final Research Achievements

We have developed our simulation for epithelial tissues, 4D visualisation and 4D data analysis methods and systems, and contributed to the elucidation of the relationship between extracellular signalling and tissue morphogenesis with regard to wing epithelial morphogenesis during the pupal stage of Drosophila melanogaster.
In detail, we have developed 4D image processing programmes and various analysis methods specific to the confocal and multiphoton microscopy systems for pupal wing formation of the fruit fly, and contributed to the elucidation of the relationship between BMP signalling and 3D tissue morphogenesis such as differentiation and growth. Based on our tissue mechanics model, called bubbly model, in-silico viscoelastic simulation systems have also been developed and constructed.

Academic Significance and Societal Importance of the Research Achievements

We have developed four-dimensional visualization and analysis system for fly pupal wing, and simulation for viscoelastic epithelial monolayer. The results are applicable to various in-vivo animal systems, and they may further contribute to medical research and society in the future.

Report

(6 results)
  • 2022 Annual Research Report   Final Research Report ( PDF )
  • 2021 Research-status Report
  • 2020 Research-status Report
  • 2019 Research-status Report
  • 2018 Research-status Report
  • Research Products

    (33 results)

All 2022 2021 2020 2019 2018 Other

All Int'l Joint Research (3 results) Journal Article (2 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 2 results,  Open Access: 1 results) Presentation (23 results) (of which Int'l Joint Research: 10 results,  Invited: 1 results) Remarks (5 results)

  • [Int'l Joint Research] タルトゥ大学(エストニア)2020

    • Year and Date
      2020-03-12
    • Related Report
      2022 Annual Research Report
  • [Int'l Joint Research] ソルボンヌ大学(フランス)2019

    • Related Report
      2022 Annual Research Report
  • [Int'l Joint Research] ヘルシンキ大学(フィンランド)2018

    • Related Report
      2022 Annual Research Report
  • [Journal Article] Towards Particle Tracking Velocimetry of Cell Flow in Developing Tissue Using Deep Neural Network.2020

    • Author(s)
      Ishimoto Y., Watanabe T.
    • Journal Title

      Lecture Notes in Computational Vision and Biomechanics

      Volume: 36 Pages: 495-504

    • DOI

      10.1007/978-3-030-43195-2_40

    • ISBN
      9783030431945, 9783030431952
    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] Coupling between dynamic 3D tissue architecture and BMP morphogen signaling during Drosophila wing morphogenesis2019

    • Author(s)
      J. Gui, Y. Huang, M. Montanari, D. Toddie-Moore, K. Kikushima, S. Nix, Y. Ishimoto, and O. Shimmi
    • Journal Title

      Proceedings of the National Academy of Sciences of the United States of America

      Volume: 116 Issue: 10 Pages: 4352-4361

    • DOI

      10.1073/pnas.1815427116

    • Related Report
      2018 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] Modelling, quantification, and data assimilation of epithelial monolayer tissue2022

    • Author(s)
      Yukitaka Ishimoto
    • Organizer
      18th European Mechanics of Materials Conference
    • Related Report
      2022 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Biomechanical excursion from cell shapes to dragonfly wings2022

    • Author(s)
      石本志高
    • Organizer
      非平衡・多階層・複雑系研究会
    • Related Report
      2022 Annual Research Report
  • [Presentation] Biomechanical excursion on soft/bio materials 20222022

    • Author(s)
      石本志高
    • Organizer
      ソフトバイオ研究会
    • Related Report
      2022 Annual Research Report
  • [Presentation] 上皮組織における細胞流れの力学量の可視化2022

    • Author(s)
      鈴木華子, 柏正幸, 津川暁, 石本志高
    • Organizer
      ソフトバイオ研究会
    • Related Report
      2022 Annual Research Report
  • [Presentation] In-vivo cell flow visualisation using deep learning and other means2021

    • Author(s)
      Yukitaka Ishimoto, Masayuki Kashiwa
    • Organizer
      Virtual SMB 2021 Annual meeting
    • Related Report
      2021 Research-status Report
    • Int'l Joint Research
  • [Presentation] Visualization of cell flow by cell vertex and bubbly cell shape tracking2021

    • Author(s)
      Masayuki Kashiwa, Takuya Toyoshima, Yukitaka Ishimoto
    • Organizer
      Virtual SMB 2021 Annual meeting
    • Related Report
      2021 Research-status Report
    • Int'l Joint Research
  • [Presentation] Monoaxial stretch of an edge-bound in-silico epithelial tissue by bubbly vertex model2021

    • Author(s)
      Yukitaka Ishimoto
    • Organizer
      17th International Symposium on Computer Methods in Biomechanics and Biomedical Engineering and the 5th Conference on Imaging and Visualization
    • Related Report
      2021 Research-status Report
    • Int'l Joint Research
  • [Presentation] Visualization and quantification of cell flow by bubbly cell tracking2021

    • Author(s)
      M. Kashiwa, T. Toyoshima, Y. Ishimoto
    • Organizer
      17th International Symposium on Computer Methods in Biomechanics and Biomedical Engineering and the 5th Conference on Imaging and Visualization
    • Related Report
      2021 Research-status Report
    • Int'l Joint Research
  • [Presentation] Modelling, quantification, and data assimilation of epithelial monolayer tissue2021

    • Author(s)
      Y. Ishimoto, M. Kashiwa
    • Organizer
      The 11th Asia-Pacific Conference on Biomechanics
    • Related Report
      2021 Research-status Report
    • Int'l Joint Research
  • [Presentation] 単層上皮組織のモデリング・定量化およびデータ同化2021

    • Author(s)
      石本志高
    • Organizer
      日本機械学会第33回バイオエンジニアリング講演会
    • Related Report
      2021 Research-status Report
    • Invited
  • [Presentation] バブリーバーテックス模型によるインシリコ上皮組織のレオロジー特性2021

    • Author(s)
      石本志高,豊嶋拓哉
    • Organizer
      機械学会2021年度年次大会
    • Related Report
      2021 Research-status Report
  • [Presentation] Visualization of cell flow by cell vertex and bubbly cell shape tracking2021

    • Author(s)
      Masayuki Kashiwa, Takuya Toyoshima, Yukitaka Ishimoto
    • Organizer
      ソフトバイオ研究会2021
    • Related Report
      2021 Research-status Report
  • [Presentation] 深層学習等を用いた生体組織内細胞流れの可視化2021

    • Author(s)
      石本志高
    • Organizer
      日本物理学会第76回年次大会
    • Related Report
      2020 Research-status Report
  • [Presentation] 生体組織内細胞流れの深層ニューラルネットワークを用いた可視化の試み2020

    • Author(s)
      石本志高,柏正幸,渡部茂暁
    • Organizer
      生体医工学シンポジウム
    • Related Report
      2020 Research-status Report
  • [Presentation] 細胞頂点・形状トラッキングによる細胞流れ可視化の試み2020

    • Author(s)
      柏正幸,豊嶋拓哉,石本志高
    • Organizer
      生体医工学シンポジウム
    • Related Report
      2020 Research-status Report
  • [Presentation] 変形移動する上皮細胞集団流れの可視化に向けて2020

    • Author(s)
      石本志高,柏正幸
    • Organizer
      数理生物学会2020
    • Related Report
      2020 Research-status Report
  • [Presentation] Bubbly Cell Tracking Velocimetry-細胞頂点・形状トラッキングの試み2020

    • Author(s)
      柏正幸,豊嶋拓哉,石本志高
    • Organizer
      機械学会東北支部会第55期支部総会・講演会
    • Related Report
      2019 Research-status Report
  • [Presentation] Dynamical rheological properties of in-silico epithelial tissue by vertex models.2019

    • Author(s)
      Y. Ishimoto, T. Toyoshima
    • Organizer
      International Soft Matter Conference 2019
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Towards particle tracking velocimetry of cell flow in developing tissue using deep neural network2019

    • Author(s)
      Y. Ishimoto, T. Watanabe
    • Organizer
      16th International Symposium on Computer Methods in Biomechanics and Biomedical Engineering and 4th Conference on Imaging and Visualization
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Towards Particle Tracking Velocimetry of Cell Flow Using Deep Learning2019

    • Author(s)
      Y. Ishimoto, T. Watanabe
    • Organizer
      The 10th Asian-Pacific Conference on Biomechanics (AP Biomech 2019)
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] 生物・生命の移動現象:実験とシミュレーションと機械と私2019

    • Author(s)
      石本志高
    • Organizer
      研究会「理論と実験」2019
    • Related Report
      2019 Research-status Report
  • [Presentation] 生体組織内多細胞構造のレオロジーおよび移動現象に関するシミュレーション研究2019

    • Author(s)
      豊嶋拓哉,石本志高
    • Organizer
      ソフトバイオ研究会2019
    • Related Report
      2019 Research-status Report
  • [Presentation] In-silico rheological experiments of an epithelial sheet by the cell vertex model and the bubbly vertex model2018

    • Author(s)
      Y. Ishimoto and T. Toyoshima
    • Organizer
      12th European Fluid Mechanics Conference (EFMC12)
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Remarks] esearchmap: 石本 志高 -- Published papers

    • URL

      https://researchmap.jp/y.ishimoto/published_papers

    • Related Report
      2022 Annual Research Report
  • [Remarks] Research Gate: Yukitaka Ishimoto -- Publications

    • URL

      http://www.researchgate.net/profile/Yukitaka_Ishimoto/publications

    • Related Report
      2022 Annual Research Report 2021 Research-status Report 2020 Research-status Report 2019 Research-status Report 2018 Research-status Report
  • [Remarks] researchmap: 石本 志高 -- Published papers

    • URL

      https://researchmap.jp/y.ishimoto/published_papers

    • Related Report
      2021 Research-status Report 2020 Research-status Report
  • [Remarks] 秋田県立大学 研究者総覧

    • URL

      http://www.akita-pu.ac.jp/stic/souran/scholar/detail.php?id=308

    • Related Report
      2019 Research-status Report 2018 Research-status Report
  • [Remarks] Yukitaka Ishimoto, Dr

    • URL

      http://www2.yukawa.kyoto-u.ac.jp/~yukitaka.ishimoto/

    • Related Report
      2019 Research-status Report 2018 Research-status Report

URL: 

Published: 2018-01-25   Modified: 2025-01-30  

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