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Multiscale modeling and simulation study for immune inflammatory response at the skin tissue

Research Project

Project/Area Number 25871132
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Foundations of mathematics/Applied mathematics
Computational science
Research InstitutionThe University of Tokyo (2014-2015)
Institute of Physical and Chemical Research (2013)

Principal Investigator

Nakaoka Shinji  東京大学, 医学(系)研究科(研究院), 助教 (30512040)

Project Period (FY) 2013-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2015: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2014: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2013: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Keywordsマルチスケール数理モデル / 確率シミュレーション / 免疫系 / アトピー性皮膚炎
Outline of Final Research Achievements

The purpose of the present research project is to construct multi-scale mathematical models representing disease progression. A particular focus of this study is to describe the progression of atopic dermatitis as a representative skin inflammatory disease. One of mathematical analyses conducted in this research project includes propagation of the inflammatory response at the epidermis tissue. Moreover, interactions amount protease activity and immune response was incorporated to investigate how chronic inflammation is maintained. The later of the project has been in preparation to submit a peer review journal. This work is done by an international collaboration. In addition, study on determining an appropriate numerical computation scheme was examined to develop an efficient and useful computation scheme to implement numerical simulations for multi-scale models. These achievements will be further improved to obtain clear understanding on multi-scale dynamics in disease progression.

Report

(4 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Research-status Report
  • 2013 Research-status Report
  • Research Products

    (25 results)

All 2016 2015 2014 2013 Other

All Int'l Joint Research (1 results) Journal Article (10 results) (of which Int'l Joint Research: 3 results,  Peer Reviewed: 10 results,  Open Access: 2 results,  Acknowledgement Compliant: 6 results) Presentation (13 results) (of which Int'l Joint Research: 4 results,  Invited: 4 results) Book (1 results)

  • [Int'l Joint Research] Konkuk University/UNIST(韓国)

    • Related Report
      2015 Annual Research Report
  • [Journal Article] Identifying determinants of heterogeneous transmission dynamics of the Middle East respiratory syndrome (MERS) outbreak in the Republic of Korea, 2015: a retrospective epidemiological analysis.2016

    • Author(s)
      Nishiura H, Endo A, Saitoh M, Kinoshita R, Ueno R, Nakaoka S, Miyamatsu Y, Dong Y, Chowell G, Mizumoto K
    • Journal Title

      BMJ Open

      Volume: 6 Issue: 2 Pages: e009936-e009936

    • DOI

      10.1136/bmjopen-2015-009936

    • NAID

      120005855950

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Cell-to-cell infection by HIV contributes over half of virus infection2015

    • Author(s)
      Shingo Iwami, Junko S. Takeuchi, Shinji Nakaoka, Fabrizio Mammano, François Clavel, Hisashi Inaba, Tomoko Kobayashi, Naoko Misawa, Kazuyuki Aihara, Yoshio Koyanagi & Kei Sato
    • Journal Title

      eLife

      Volume: 4 Pages: 1-16

    • DOI

      10.7554/elife.08150

    • NAID

      120005997708

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Dynamical behavior of combinational immune boost against tumor2015

    • Author(s)
      Mizuho Nagata, Yutaro Furuta, Yasuhiro Takeuchi, and Shinji Nakaoka
    • Journal Title

      Japan Journal of Industrial and Applied Mathematics

      Volume: 32 Issue: 3 Pages: 759-770

    • DOI

      10.1007/s13160-015-0193-5

    • NAID

      210000174398

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Dynamics of HIV infection in lymphoid tissue network2015

    • Author(s)
      Shinji Nakaoka, Shingo Iwami & Kei Sato
    • Journal Title

      Journal of Mathematical Biology

      Volume: 72 Issue: 4 Pages: 909-938

    • DOI

      10.1007/s00285-015-0940-x

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Effect of eclipse phase on quantifying viral dynamics of acute HIV-1 infection in humanized mouse model2015

    • Author(s)
      Ikeda H, Nakaoka S, Sato K, Misawa N, Koyanagi Y, Iwami S
    • Journal Title

      Nonlinear Theory and Its Application, IEICE

      Volume: 6

    • NAID

      130004960164

    • Related Report
      2014 Research-status Report
    • Peer Reviewed
  • [Journal Article] Mathematical analysis and classification of tumor immune dynamics in T cell transfer treatment2015

    • Author(s)
      Shinji Nakaoka
    • Journal Title

      Nonlinear Theory and Its Application, IEICE

      Volume: 6

    • NAID

      130004960165

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] A conservation law for virus infection kinetics in vitro2015

    • Author(s)
      Yusuke Kakizoe, Satoru Morita, Shinji Nakaoka, Yasuhiro Takeuchi, Kei Sato, Tomoyuki Miura, Catherine A. A. Beauchemin, and Shingo Iwami
    • Journal Title

      Journal of Theoretical Biology

      Volume: 376 Pages: 39-47

    • DOI

      10.1016/j.jtbi.2015.03.034

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] A method to determine the duration of the eclipse phase for in vitro infection with a highly pathogenic SHIV strain2015

    • Author(s)
      Yusuke Kakizoe, Shinji Nakaoka, Catherine A. A. Beauchemin, Satoru Morita, Hiromi Mori, Tatsuhiko Igarashi, Kazuyuki Aihara, Tomoyuki Miura, Shingo Iwami
    • Journal Title

      Scientific Reports

      Volume: x

    • NAID

      120005689172

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Multi-scale mathematical modeling and simulation of cellular dynamical process2014

    • Author(s)
      Shinji Nakaoka
    • Journal Title

      Epidermal Cells: Methods and Protocols, Third Edition.

      Volume: 印刷中

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Cost-effective length and timing of school closure during an influenza pandemic depend on the severity2014

    • Author(s)
      H. Nishiura, K. Ejima, K. Mizumoto, S. Nakaoka, H. Inaba, S. Imoto, R. Yamaguchi and M. Saito
    • Journal Title

      Theor. Biol. Med. Modelling

      Volume: 11:5 Issue: 1 Pages: 1-14

    • DOI

      10.1186/1742-4682-11-5

    • Related Report
      2013 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Presentation] Ordinary differential equations for HIV infection in lymphoid tissue network2015

    • Author(s)
      Shinji Nakaoka, Shingo Iwami, Kei Sato
    • Organizer
      RIMS 研究集会「実領域における常微分方程式の定性的研究」
    • Place of Presentation
      京都大学数理解析研究所
    • Year and Date
      2015-11-10
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] HIV infection in lymphoid tissue-blood stream network2015

    • Author(s)
      Shinji Nakaoka, Shingo Iwami, Kei Sato
    • Organizer
      IMAID 2015 (Innovative Mathematical Modeling for the Analysis of Infectious Disease Data)
    • Place of Presentation
      Hokkaido University
    • Year and Date
      2015-10-30
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Mathematical modeling and simulation for a coupled communication system of immune cells2015

    • Author(s)
      Shinji Nakaoka
    • Organizer
      4th IFAC Conference on Analysis and Control of Chaotic Systems
    • Place of Presentation
      Tokyo Metropolitan University
    • Year and Date
      2015-08-26
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Dynamics of HIV infection in lymphoid tissue network2015

    • Author(s)
      Shinji Nakaoka, Shingo Iwami, Kei Sato
    • Organizer
      2nd Virus Dynamics Workshop
    • Place of Presentation
      Fields Institute, Toronto, Canada
    • Year and Date
      2015-07-17
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Mathematical modeling and simulation of HIV infection in a lymph node network2015

    • Author(s)
      Shinji Nakaoka
    • Organizer
      10th Colloquium on the Qualitative Theory of Differential Equations
    • Place of Presentation
      Bolyai Institute, Szeged, Hungary
    • Year and Date
      2015-07-03
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Migratory dynamics of lymphocyte trafficking on a lymph node network2015

    • Author(s)
      Shinji Nakaoka
    • Organizer
      Winter Q-bio 2015
    • Place of Presentation
      Maui Hawaii
    • Year and Date
      2015-02-19
    • Related Report
      2014 Research-status Report
  • [Presentation] Mathematical modeling of tumor elimination by cell-mediated and humoral immunity2014

    • Author(s)
      Shinji Nakaoka
    • Organizer
      偏微分方程式岡山小研究集会
    • Place of Presentation
      岡山大学
    • Year and Date
      2014-12-02
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] 癌の免疫療法に対する数理モデル2014

    • Author(s)
      Shinji Nakaoka
    • Organizer
      第 11 回「生物数学の理論とその応用
    • Place of Presentation
      京都大学数理解析研究所
    • Year and Date
      2014-09-11
    • Related Report
      2014 Research-status Report
  • [Presentation] Modeling of dynamic structural change of immune response during acute inflammation2014

    • Author(s)
      Shinji Nakaoka
    • Organizer
      JSMB/SMB2014
    • Place of Presentation
      Osaka, Japan
    • Year and Date
      2014-07-31
    • Related Report
      2014 Research-status Report
  • [Presentation] Stochastic cell fate determination of stem cell dynamics2014

    • Author(s)
      Shinji Nakaoka
    • Organizer
      JSMB/SMB2014
    • Place of Presentation
      Osaka, Japan
    • Year and Date
      2014-07-29
    • Related Report
      2014 Research-status Report
  • [Presentation] Mathematical Modeling and Simulation of Tumor immune therapy2014

    • Author(s)
      Shinji Nakaoka
    • Organizer
      Application of ecological and mathematical theory to cancer: new challenges
    • Place of Presentation
      NIMS, South Korea
    • Year and Date
      2014-05-13
    • Related Report
      2014 Research-status Report
  • [Presentation] Population dynamics of layer-structured epidermal cells --mathematical analysis and stochastic simulation-2013

    • Author(s)
      Shinji Nakaoka
    • Organizer
      The Fourth Conference on Computational and Mathematical Population Dynamics (CMPD4)
    • Place of Presentation
      Taiyuan, China
    • Related Report
      2013 Research-status Report
  • [Presentation] Stochastic Simulations for Spatial Spread of Inflammatory Response2013

    • Author(s)
      Shinji Nakaoka
    • Organizer
      The 3rd International Symposium on Innovative Mathematical Modeling
    • Place of Presentation
      Tokyo, Japan
    • Related Report
      2013 Research-status Report
  • [Book] 応用数理ハンドブック (感染症と免疫の数理)2013

    • Author(s)
      稲葉寿、西浦博、岩見真吾、中岡慎治
    • Total Pages
      704
    • Publisher
      朝倉書店
    • Related Report
      2013 Research-status Report

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Published: 2014-07-25   Modified: 2022-01-31  

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