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Spatial-temporal virus dynamics based on reaction-diffusion model

Research Project

Project/Area Number 16K13777
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field Foundations of mathematics/Applied mathematics
Research InstitutionKyushu University

Principal Investigator

Iwami Shingo  九州大学, 理学研究院, 准教授 (90518119)

Co-Investigator(Kenkyū-buntansha) 本田 知之  大阪大学, 医学系研究科, 准教授 (80402676)
Project Period (FY) 2016-04-01 – 2019-03-31
Project Status Completed (Fiscal Year 2018)
Budget Amount *help
¥3,510,000 (Direct Cost: ¥2,700,000、Indirect Cost: ¥810,000)
Fiscal Year 2018: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2017: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2016: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Keywords数理モデル型アプローチ / 定量的データ解析 / 時空間モデリング / 数理モデル / 時空間動態 / 反応拡散方程式 / 時空間ダイナミクス / 拡散方程式 / データ解析 / 偏微分方程式 / 実験解析 / シミュレーション
Outline of Final Research Achievements

Collaboration with theory and data analysis is establishing mainly in research using ODE. Currently, although development of measurement technology has made it possible to acquire rich spatio-temporal data, the theory based on ODE can not be applied to data including such spatial information. In this research project, we developed spatio-temporal data analysis approach using Borna virus infection experiments and numerical simulation.

Academic Significance and Societal Importance of the Research Achievements

数理モデルおよびその理論を用いたウイルス感染の時空間データ解析への適用は極めて限定的であったが、世界初となるウイルス感染の時空間データの解析が可能になった(その他ウイルス感染への応用)。また、数理科学と他分野の連携研究を通じて、特に、新規抗ウイルス薬の開発に貢献する事ができる。主に培養細胞を用いたボルナウイルス感染実験から得られる時空間データを扱ったが、提案したアプローチは、様々なウイルスを用いた時空間データ解析に応用可能である。

Report

(4 results)
  • 2018 Annual Research Report   Final Research Report ( PDF )
  • 2017 Research-status Report
  • 2016 Research-status Report
  • Research Products

    (40 results)

All 2019 2018 2017 2016 Other

All Int'l Joint Research (12 results) Journal Article (21 results) (of which Int'l Joint Research: 16 results,  Peer Reviewed: 20 results,  Open Access: 13 results,  Acknowledgement Compliant: 1 results) Presentation (7 results) (of which Int'l Joint Research: 7 results,  Invited: 5 results)

  • [Int'l Joint Research] INSERM(フランス)

    • Related Report
      2018 Annual Research Report
  • [Int'l Joint Research] UNSW(オーストラリア)

    • Related Report
      2018 Annual Research Report
  • [Int'l Joint Research] ICL(英国)

    • Related Report
      2018 Annual Research Report
  • [Int'l Joint Research] ロスアラモス国立研究所(米国)

    • Related Report
      2017 Research-status Report
  • [Int'l Joint Research] ライルソン大学(カナダ)

    • Related Report
      2017 Research-status Report
  • [Int'l Joint Research] INSERM(フランス)

    • Related Report
      2017 Research-status Report
  • [Int'l Joint Research] ニューサウスウェールズ大学(オーストラリア)

    • Related Report
      2017 Research-status Report
  • [Int'l Joint Research] ロスアラモス国立研究所(米国)

    • Related Report
      2016 Research-status Report
  • [Int'l Joint Research] ユトレヒト大学(オランダ)

    • Related Report
      2016 Research-status Report
  • [Int'l Joint Research] ライルソン大学(カナダ)

    • Related Report
      2016 Research-status Report
  • [Int'l Joint Research] ニューサウスウェールズ大学(オーストラリア)

    • Related Report
      2016 Research-status Report
  • [Int'l Joint Research]

    • Related Report
      2016 Research-status Report
  • [Journal Article] Epidermal growth factor receptor is a host entry cofactor triggering hepatitis B virus internalization2019

    • Author(s)
      M. Iwamoto, W. Saso, R. Sugiyama, K. Ishii, M. Ohki, S. Nagamori, R. Suzuki, H. Aizaki, A. Ryo, J-H Yun, S-Y Park, N. Ohtani, M. Muramatsu, S. Iwami, Y. Tanaka, C. Sureau, T. Wakita and K. Watashi
    • Journal Title

      Proc. Natl. Acad. Sci. USA

      Volume: 116 Issue: 17 Pages: 8487-8492

    • DOI

      10.1073/pnas.1811064116

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Mathematical analysis of a transformed ODE from a PDE multiscale model of hepatitis C virus infection2019

    • Author(s)
      Kitagawa K., Kuniya T., Nakaoka S., Asai Y., Watashi K. and Iwami S.
    • Journal Title

      Bulletin of Mathematical Biology

      Volume: 81(5) Issue: 5 Pages: 1427-1441

    • DOI

      10.1007/s11538-018-00564-y

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Quantitative immunology by data analysis using mathematical models2019

    • Author(s)
      S. Iwanami and S. Iwami
    • Journal Title

      Encyclopedia of Bioinformatics and Computational Biology

      Volume: 2 Pages: 984-992

    • DOI

      10.1016/b978-0-12-809633-8.20250-1

    • ISBN
      9780128114322
    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Dynamics of HIV-1 coinfection in different susceptible target cell populations during cell-free infection2018

    • Author(s)
      Y. Ito, A. Tauzin, A. Remion, K. Ejima, F. Mammano and S. Iwami
    • Journal Title

      Journal of Theoretical Biology

      Volume: 455 Pages: 39-46

    • DOI

      10.1016/j.jtbi.2018.06.025

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] A PDE multiscale model of hepatitis C virus infection can be transformed to a system of ODEs2018

    • Author(s)
      K. Kitagawa, S. Nakaoka, Y. Asai, K. Watashi, S. Iwami
    • Journal Title

      Journal of Theoretical Biology

      Volume: 48 Pages: 80-85

    • DOI

      10.1016/j.jtbi.2018.04.006

    • Related Report
      2018 Annual Research Report 2017 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Malaria incidences in South Africa linked to a climate mode in southwestern Indian Ocean2018

    • Author(s)
      SK. Behera, Y. Morioka, T. Ikeda, T. Doi, JV. Ratnam, M. Nonaka, A. Tsuzuki, C. Imai, Y. Kim, M. Hashizume, S. Iwami, P. Kruger, R. Maharaj, N. Sweijd and N. Minakawa
    • Journal Title

      Environmental Development

      Volume: 27 Pages: 47-57

    • DOI

      10.1016/j.envdev.2018.07.002

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Sporadic on/off switching of HTLV-1 Tax expression is crucial to maintain the whole population of virus-induced leukemic cells.2018

    • Author(s)
      Mahgoub M, Yasunaga JI, Iwami S, Nakaoka S, Koizumi Y, Shimura K, Matsuoka M.
    • Journal Title

      Proc Natl Acad Sci U S A

      Volume: 115 Issue: 6 Pages: 529-538

    • DOI

      10.1073/pnas.1715724115

    • NAID

      120006697286

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Human-specific adaptations in Vpu conferring anti-tetherin activity are critical for efficient early HIV-1 replication in vivo.2017

    • Author(s)
      Eri Yamada, Shinji Nakaoka, Lukas Klein, Elisabeth Reith, Simon Langer, Kristina Hopfensperger, Shingo Iwami, Gideon Schreiber, Frank Kirchhoff, Yoshio Koyanagi, Daniel Sauter & Kei Sato
    • Journal Title

      Cell Host & Microbe

      Volume: 23 Issue: 1 Pages: 110-120

    • DOI

      10.1016/j.chom.2017.12.009

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Number of infection events per cell during HIV-1 cell-free infection2017

    • Author(s)
      Ito Y, Remion A, Tauzin A, Ejima K, Nakaoka S, Iwasa Y, Iwami S, Mammano F
    • Journal Title

      Sci Rep

      Volume: 7 Issue: 1 Pages: 6559-6559

    • DOI

      10.1038/s41598-017-03954-9

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Reply to Padmanabhan and Dixit: Hepatitis C virus entry inhibitors for optimally boosting direct-acting antiviral-based treatments.2017

    • Author(s)
      Ohashi HK, Koizumi Y, Fukano K, Wakita T, Perelson AS, Iwami S, Watashi K
    • Journal Title

      Proc Acad Natl Acad USA

      Volume: 114 Issue: 23

    • DOI

      10.1073/pnas.1705234114

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] HIV-1 competition experiments in humanized mice show that APOBEC3H imposes selective pressure and promotes virus adaptation.2017

    • Author(s)
      Yusuke Nakano, Naoko Misawa, Guillermo Juarez-Fernandez, Miyu Moriwaki, Shinji Nakaoka, Takaaki Funo, Eri Yamada, Andrew Soper, Rokusuke Yoshikawa, Diako Ebrahimi, Yuuya Tachiki, Shingo Iwami, Reuben S. Harris, Yoshio Koyanagi & Kei Sato
    • Journal Title

      PLOS Pathogens

      Volume: 13 Issue: 5 Pages: 31-31

    • DOI

      10.1371/journal.ppat.1006348

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] A highly pathogenic simian/human immunodeficiency virus effectively produces infectious virions compared with a less pathogenic virus in cell culture2017

    • Author(s)
      Iwanami S, Kakizoe Y, Morita S, Miura T, Nakaoka S, Iwami S
    • Journal Title

      Theor Biol Med Model

      Volume: 14 Issue: 1 Pages: 9-9

    • DOI

      10.1186/s12976-017-0055-8

    • NAID

      120006305768

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] A heart-brain-kidney network controls adaptation to cardiac stress through tissue macrophage activation and cellular communication2017

    • Author(s)
      Fujiu K, Shibata M, Nakayama Y, Ogata F, Matsumoto S, Noshita K, Iwami S, Nakae S, Komuro I, Nagai R, Manabe I
    • Journal Title

      Nature Medicine

      Volume: 印刷中 Issue: 5 Pages: 611-622

    • DOI

      10.1038/nm.4326

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Quantifying antiviral activity optimizes drug combinations against hepatitis C virus infection2017

    • Author(s)
      Y. Koizumi, H. Ohashi, S. Nakajima, Y. Tanaka, T. Wakita, AS. Perelson, S. Iwami†, and K. Watashi†.
    • Journal Title

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

      Volume: 114 Pages: 1922-1927

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Duration of SHIV production by infected cells is not exponentially distributed: Implications for estimates of infection parameters and antiviral efficacy2017

    • Author(s)
      CA. Beauchemin, T. Miura, and S. Iwami.
    • Journal Title

      Scientific Reports

      Volume: 7 Pages: 42765-42765

    • NAID

      120005997746

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] A heart-brain-kidney network controls adaptation to cardiac stress through tissue macrophage activation and cellular communication2017

    • Author(s)
      K. Fujiu†, M. Shibata†, Y. Nakayama, F. Ogata, S. Matsumoto, K. Noshita, S. Iwami, S. Nakae, I. Komuro, R. Nagai, and I. Manabe.
    • Journal Title

      Nature Medicine

      Volume: In press

    • Related Report
      2016 Research-status Report
    • Peer Reviewed
  • [Journal Article] (In)validating experimentally-derived knowledge about influenza A defective interfering particles2016

    • Author(s)
      LE. Liao, S. Iwami, CA. Beauchemin
    • Journal Title

      Journal of the Royal Society Interface

      Volume: 13 Pages: 2016412-2016412

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Impact of asymptomatic infections on the early spread of malaria2016

    • Author(s)
      T. Funo, H. Inaba, M. Jusup, A. Tsuzuki, N. Minakawa, and S. Iwami
    • Journal Title

      Japan Journal of Industrial and Applied Mathematics

      Volume: 33 Pages: 671-681

    • NAID

      210000176097

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Modelling Ebola virus dynamics: Implications for therapy2016

    • Author(s)
      A. Martyushev, S. Nakanoka, K. Sato, T. Noda†, and S. Iwami†.
    • Journal Title

      Antiviral Research

      Volume: 135 Pages: 62-73

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Quantifying the effect of Vpu on the promotion of HIV-1 replication in the humanized mouse model,2016

    • Author(s)
      H. Ikeda†, S Nakaoka†, RJ. De Boer, S. Morita, N. Misawa, Y. Koyanagi, K. Aihara, K. Sato‡, and S. Iwami‡,
    • Journal Title

      Retrovirology

      Volume: 13 Pages: 2-2

    • NAID

      120006353849

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Dynamics of HIV infection in lymphoid tissue network2016

    • Author(s)
      S. Nakaoka, S. Iwami, and K. Sato
    • Journal Title

      Journal of Mathematical Biology

      Volume: 72 Pages: 909-38

    • Related Report
      2016 Research-status Report
  • [Presentation] 1.Quantifying antiviral activity optimizes drug combinations against hepatitis C virus infection2018

    • Author(s)
      Shingo Iwami
    • Organizer
      ECMTB2018
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 2.PKPDVD modeling for multi-drug treatment on HCV infection2018

    • Author(s)
      Shingo Iwami
    • Organizer
      KSIAM2018
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Characterizing SHIV infection in vitro and in vivo2018

    • Author(s)
      Shingo Iwami
    • Organizer
      SMB&JSMB2018
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Modeling virus infection in cell culture2018

    • Author(s)
      Shingo Iwami
    • Organizer
      Simons Semester on Mathematical Biology in Warsaw, Epi-workshop
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Quantification of virus infection in cell culture2017

    • Author(s)
      Shingo Iwami
    • Organizer
      A3-NIMS joint workshop on mathematical biology
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Quantifying antiviral activity optimizes drug combinations against HCV infection2017

    • Author(s)
      Shingo Iwami
    • Organizer
      The 18th RIES-HOKUDAI international symposium
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] HCV entry inhibitors for optimally boosting direct-acting antiviral-based treatments2017

    • Author(s)
      Shingo Iwami
    • Organizer
      Innovative Mathematical Modeling for the Analysis of Infectious Disease Data
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research / Invited

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Published: 2016-04-21   Modified: 2022-02-21  

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