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Nakaoka Shinji  中岡 慎治

… Alternative Names

NAKAOKA shinji  中岡 慎冶

中岡 慎冶  ナカオカ シンジ

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Researcher Number 30512040
Other IDs
  • ORCIDhttps://orcid.org/0000-0002-3277-9552
Affiliation (Current) 2025: 北海道大学, 先端生命科学研究院, 教授
Affiliation (based on the past Project Information) *help 2019 – 2023: 北海道大学, 先端生命科学研究院, 准教授
2017 – 2019: 北海道大学, 先端生命科学研究院, 特任講師
2016 – 2018: 東京大学, 生産技術研究所, 派遣研究員
2016 – 2018: 東京大学, 生産技術研究所, 特任助教
2015: 東京大学, 大学院医学系研究科, 助教
2014 – 2015: 東京大学, 医学(系)研究科(研究院), 助教
2013: 独立行政法人理化学研究所, 統合生命医科学研究センター, 上級研究員
Review Section/Research Field
Principal Investigator
Medium-sized Section 62:Applied informatics and related fields / Foundations of mathematics/Applied mathematics / Constructive Systems Biology / Computational science
Except Principal Investigator
Medium-sized Section 58:Society medicine, nursing, and related fields / Basic Section 53020:Cardiology-related / Medium-sized Section 39:Agricultural and environmental biology and related fields / Basic Section 49060:Virology-related / Bacteriology (including mycology) / Mathematical informatics … More / Complex Systems Disease Theory / Social welfare and social work studies / Epidemiology and preventive medicine / Hygiene and public health / Mathematical Sciences in Search of New Cooperation Less
Keywords
Principal Investigator
数理モデル / 擬似時間再構成法 / オミクスデータ / 発症ロードマップ / データ駆動型数理モデル / エネルギーランドスケープ解析 / 再生医学 / 免疫学 / 数学基礎論 / 数理工学 … More / モデル化 / 生命医科学 / 応用数学 / 人工共培養系 / 複合オミクス解析 / 進化のダイナミクス / 人工培養系 / アトピー性皮膚炎 / 免疫系 / 確率シミュレーション / マルチスケール数理モデル … More
Except Principal Investigator
危険因子 / 健康格差 / 疫学 / 数理モデル / 費用対効果分析 / 医療管理学 / ELSI / 数理科学 / 医療経済評価 / 感染症疫学モデル / 新型コロナウイルス感染症 / IoT / ICT / パーソナルヘルスレコード / 心血管病 / 機械学習モデル / デジタルヘルス / パーソナル・ヘルス・レコード / 腸内細菌叢 / ミツバチヘギイタダニ / ノゼマ病 / 蜂病 / 環境 / ハナバチ / 病気 / 野生ハナバチ / 土地利用パターン / 腸内細菌 / リアルタイムPCR / 市民科学 / ミツバチ / 病原体 / 農薬 / HIV / ウイルス感染症 / エイズウイルス / ウイルス感染 / マルチオミクス / システムウイルス学 / ウイルス学 / ゲノム / 進化 / 腸管出血性大腸菌 / 原生生物 / 共進化 / 大腸菌 / ファージ / 志賀毒素 / 数理的基盤 / 動的ネットワークバイオマーカー / 内分泌療法 / 個別化医療 / 数理モデリング / 生命病態システム / バイオマーカー / 疾患予測 / 状態空間モデル / 分岐現象 / 機械学習 / 時系列解析 / 状態遷移モデル / 制御ネットワーク / 多階層ネットワーク / 社会福祉計画 / 保健人材管理 / 社会医学 / 社会福祉関係 / 人口学 / 高齢化 / Modeling / Aging / Simulation / Projection / Matrix models / Demography / 人口予想 / シミュレーション / 高齢化社会 / 保健医療システム / 地域別健康格差 / 将来予測 / 都道府県別 / 疾病・危険因子 / データビジュアライゼーション / 健康寿命 / 疾病負荷 / 政策評価 / ベイズ推計 / 平均余命 / 死因分析 / 疾病負担(burden of disease) / 小地域分析 / 死因別死亡 / 要因 / 公衆衛生 / 疾病負担 / ウイルス感染実験 / 構造化個体群モデル / 融合研究 / データ解析 / 偏微分方程式 / 多階層数理モデル / マルチスケールモデル / 定量的データ解析 / 数理モデル型アプローチ Less
  • Research Projects

    (15 results)
  • Research Products

    (99 results)
  • Co-Researchers

    (51 People)
  •  PHRを活用した機械学習モデルによる心血管病の重症化予防を目指した研究

    • Principal Investigator
      横田 卓
    • Project Period (FY)
      2021 – 2024
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Review Section
      Basic Section 53020:Cardiology-related
    • Research Institution
      Hokkaido University
  •  Development of an integrated model for estimating emerging infectious diseases and a method for allocating medical resources by integrating mathematical science and healthcare administration

    • Principal Investigator
      佐藤 大介
    • Project Period (FY)
      2021 – 2024
    • Research Category
      Grant-in-Aid for Challenging Research (Exploratory)
    • Review Section
      Medium-sized Section 58:Society medicine, nursing, and related fields
    • Research Institution
      Fujita Health University
      Chiba University
  •  Construction of state transition model based on energy landscapePrincipal Investigator

    • Principal Investigator
      Shinji Nakaoka
    • Project Period (FY)
      2021 – 2023
    • Research Category
      Grant-in-Aid for Challenging Research (Exploratory)
    • Review Section
      Medium-sized Section 62:Applied informatics and related fields
    • Research Institution
      Hokkaido University
  •  Emerging infectious diseases of bees in Japan: integrated risk assessment for conservation

    • Principal Investigator
      Sakamoto Yoshiko
    • Project Period (FY)
      2020 – 2022
    • Research Category
      Grant-in-Aid for Scientific Research (A)
    • Review Section
      Medium-sized Section 39:Agricultural and environmental biology and related fields
    • Research Institution
      National Institute for Environmental Studies
  •  Investigation of virus infection dynamics through comprehensive multi-omics approach

    • Principal Investigator
      Sato Kei
    • Project Period (FY)
      2018 – 2021
    • Research Category
      Grant-in-Aid for Scientific Research (B)
    • Review Section
      Basic Section 49060:Virology-related
    • Research Institution
      The University of Tokyo
  •  Comprehensive Study of Disease Burden and Its Utilization by Prefecture in Japan

    • Principal Investigator
      SHIBUYA kenji
    • Project Period (FY)
      2016 – 2018
    • Research Category
      Grant-in-Aid for Scientific Research (A)
    • Research Field
      Epidemiology and preventive medicine
    • Research Institution
      The University of Tokyo
  •  A quantitative model of new strategies for Japan's hyper-aging society

    • Principal Investigator
      GILMOUR Stuart
    • Project Period (FY)
      2016 – 2018
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Social welfare and social work studies
    • Research Institution
      St. Luke's International University
      The University of Tokyo
  •  Analysis of multi-scale mathematical models with inter-hierarchical feedback effects and their applications for diseasePrincipal Investigator

    • Principal Investigator
      Nakaoka Shinji
    • Project Period (FY)
      2016 – 2018
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Foundations of mathematics/Applied mathematics
    • Research Institution
      Hokkaido University
      The University of Tokyo
  •  Elucidate latent rules in disruption of biological system

    • Principal Investigator
      Kawakami Eiryo
    • Project Period (FY)
      2016 – 2018
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Complex Systems Disease Theory
    • Research Institution
      Institute of Physical and Chemical Research
  •  mechanism of diversification of shiga toxin-encoding phage, from the ecological aspect

    • Principal Investigator
      Yoshitoshi Ogura
    • Project Period (FY)
      2016 – 2017
    • Research Category
      Grant-in-Aid for Challenging Exploratory Research
    • Research Field
      Bacteriology (including mycology)
    • Research Institution
      Kyushu University
  •  Theory for effective antiviral strategy based on multiscale mathematical modeling

    • Principal Investigator
      Iwami Shingo
    • Project Period (FY)
      2015 – 2018
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Mathematical Sciences in Search of New Cooperation
    • Research Institution
      Kyushu University
  •  Experimental evolution of Saccharomyces cerevisiaePrincipal Investigator

    • Principal Investigator
      Nakaoka Shinji
    • Project Period (FY)
      2015 – 2017
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Constructive Systems Biology
    • Research Institution
      The University of Tokyo
  •  Establishing Theoretical Foundations for Mathematical Modeling of Pathological Biosystems and its Applications to Personalized Medicine

    • Principal Investigator
      AIHARA Kazuyuki
    • Project Period (FY)
      2015 – 2019
    • Research Category
      Grant-in-Aid for Scientific Research (S)
    • Research Field
      Mathematical informatics
    • Research Institution
      The University of Tokyo
  •  Multiscale modeling and simulation study for immune inflammatory response at the skin tissuePrincipal Investigator

    • Principal Investigator
      Nakaoka Shinji
    • Project Period (FY)
      2013 – 2015
    • Research Category
      Grant-in-Aid for Young Scientists (B)
    • Research Field
      Computational science
    • Research Institution
      The University of Tokyo
      Institute of Physical and Chemical Research
  •  A comprehensive assessment of the burden of disease in Japan

    • Principal Investigator
      Shibuya Kenji
    • Project Period (FY)
      2013 – 2015
    • Research Category
      Grant-in-Aid for Scientific Research (A)
    • Research Field
      Hygiene and public health
    • Research Institution
      The University of Tokyo

All 2024 2023 2022 2021 2020 2019 2018 2017 2016 2015 2014 2013

All Journal Article Presentation Book

  • [Book] ウイルス感染の数理モデルとシミュレーション2024

    • Author(s)
      岩見 真吾 著・ 中岡 慎治 著・ 岩波 翔也 著
    • Total Pages
      304
    • Publisher
      共立出版
    • ISBN
      9784320115538
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Book] Exploring similarity between embedding dimension of time-series data and flows of an ecological population model2021

    • Author(s)
      Daiki Kumakura and Shinji Nakaoka
    • Total Pages
      10
    • Publisher
      Springer
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Book] 'Integrated population biology and modeling' (eds A.S. Rao C.R. Rao), pp.93-1302018

    • Author(s)
      S. Nakaoka
    • Total Pages
      633
    • Publisher
      North Holland
    • ISBN
      9780444640727
    • Data Source
      KAKENHI-PROJECT-15H05707
  • [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
    • Data Source
      KAKENHI-PROJECT-25871132
  • [Journal Article] Multiscale modeling of HBV infection integrating intra- and intercellular viral propagation to analyze extracellular viral markers2024

    • Author(s)
      Kitagawa Kosaku、Kim Kwang Su、Iwamoto Masashi、Hayashi Sanae、Park Hyeongki、Nishiyama Takara、Nakamura Naotoshi、Fujita Yasuhisa、Nakaoka Shinji、Aihara Kazuyuki、Perelson Alan S.、Allweiss Lena、Dandri Maura、Watashi Koichi、Tanaka Yasuhito、Iwami Shingo
    • Journal Title

      PLOS Computational Biology

      Volume: 20 Issue: 3 Pages: 1011238-1011238

    • DOI

      10.1371/journal.pcbi.1011238

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-23K07442, KAKENHI-PROJECT-21K19813, KAKENHI-PROJECT-23K27415
  • [Journal Article] Comparison of RNA-Seq analysis data between tracheal mite-infested and uninfested Japanese honey bees (Apis cerana japonica)2023

    • Author(s)
      Suzuki Akihiko、Kamakura Masaki、Shiramata Takuya、Nakaoka Shinji、Sakamoto Yoshiko
    • Journal Title

      BMC Research Notes

      Volume: 16 Issue: 1

    • DOI

      10.1186/s13104-023-06381-4

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-23K13972, KAKENHI-PROJECT-20H00425
  • [Journal Article] Disentangling the growth curve of microbial culture2023

    • Author(s)
      Kumakura Daiki、Yamaguchi Ryo、Hara Akane、Nakaoka Shinji
    • Journal Title

      Journal of Theoretical Biology

      Volume: 573 Pages: 111597-111597

    • DOI

      10.1016/j.jtbi.2023.111597

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Journal Article] Anti‐HTLV‐1 immunity combined with proviral load as predictive biomarkers for adult T‐cell leukemia‐lymphoma2023

    • Author(s)
      Yamada Asami、Yasunaga Jun‐ichirou、Liang Lihan、Zhang Wenyi、Sunagawa Junya、Nakaoka Shinji、Iwami Shingo、Kogure Yasunori、Ito Yuta、Kataoka Keisuke、Nakagawa Masanori、Iwanaga Masako、Utsunomiya Atae、Koh Ki‐Ryang、Watanabe Toshiki、Nosaka Kisato、Matsuoka Masao
    • Journal Title

      Cancer Science

      Volume: 115 Issue: 1 Pages: 310-320

    • DOI

      10.1111/cas.15997

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-21K19813, KAKENHI-PROJECT-20H03514, KAKENHI-PROJECT-23K24365, KAKENHI-PROJECT-22H04923
  • [Journal Article] Dynamic Associations of Milk Components With the Infant Gut Microbiome and Fecal Metabolites in a Mother-Infant Model by Microbiome, NMR Metabolomic, and Time-Series Clustering Analyses2022

    • Author(s)
      Komatsu Yosuke、Kumakura Daiki、Seto Namiko、Izumi Hirohisa、Takeda Yasuhiro、Ohnishi Yuki、Nakaoka Shinji、Aizawa Tomoyasu
    • Journal Title

      Frontiers in Nutrition

      Volume: 8

    • DOI

      10.3389/fnut.2021.813690

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Journal Article] Analysis of the Pancreatic Cancer Microbiome Using Endoscopic Ultrasound-Guided Fine-Needle Aspiration-Derived Samples2022

    • Author(s)
      Nakano S, Kawamoto Y, Komatsu Y, Saito R, Ito K, Yamamura T, Harada K, Yuki S, Kawakubo K, Sugiura R, Kato S, Hirata K, Hirata H, Nakajima M, Furukawa R, Takishin Y, Nagai K, Yokota I, Ota KH, Nakaoka S, Kuwatani M, Sakamoto N.
    • Journal Title

      Pancreas

      Volume: 51 Issue: 4 Pages: 351-357

    • DOI

      10.1097/mpa.0000000000002028

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-22K08023, KAKENHI-PROJECT-21K19813, KAKENHI-PROJECT-22K16034
  • [Journal Article] Chemical-Mediated Microbial Interactions Can Reduce the Effectiveness of Time-Series-Based Inference of Ecological Interaction Networks2022

    • Author(s)
      Suzuki Kenta、Abe Masato S.、Kumakura Daiki、Nakaoka Shinji、Fujiwara Fuki、Miyamoto Hirokuni、Nakaguma Teruno、Okada Mashiro、Sakurai Kengo、Shimizu Shohei、Iwata Hiroyoshi、Masuya Hiroshi、Nihei Naoto、Ichihashi Yasunori
    • Journal Title

      International Journal of Environmental Research and Public Health

      Volume: 19 Issue: 3 Pages: 1228-1228

    • DOI

      10.3390/ijerph19031228

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-20K06820, KAKENHI-PROJECT-20K11708, KAKENHI-PROJECT-21K19813
  • [Journal Article] Antithetic effect of interferon-α on cell-free and cell-to-cell HIV-1 infection.2022

    • Author(s)
      Kumata R, Iwanami S, Mar KB, Kakizoe Y, Misawa N, Nakaoka S, Koyanagi Y, Perelson A, Schoggins J, Iwami S, Sato K
    • Journal Title

      PLoS Computational Biology

      Volume: 18 Issue: 4 Pages: 1010053-1010053

    • DOI

      10.1371/journal.pcbi.1010053

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-21H02737, KAKENHI-PROJECT-22KJ1415, KAKENHI-PROJECT-21K19813, KAKENHI-PROJECT-22K19829, KAKENHI-PROJECT-18H01139, KAKENHI-PUBLICLY-22H05215
  • [Journal Article] Evolving neural networks through bio-inspired parent selection in dynamic environments2022

    • Author(s)
      Sunagawa Junya、Yamaguchi Ryo、Nakaoka Shinji
    • Journal Title

      Biosystems

      Volume: 218 Pages: 104686-104686

    • DOI

      10.1016/j.biosystems.2022.104686

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Journal Article] Early dynamics of chronic myeloid leukemia on nilotinib predicts deep molecular response2022

    • Author(s)
      Okamoto Yuji、Hirano Mitsuhito、Morino Kai、Kajita Masashi K.、Nakaoka Shinji et al
    • Journal Title

      npj Systems Biology and Applications

      Volume: 8 Issue: 1

    • DOI

      10.1038/s41540-022-00248-3

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Journal Article] A quantitative model used to compare within-host SARS-CoV-2, MERS-CoV and SARS-CoV dynamics provides insights into the pathogenesis and treatment of SARS-CoV-22021

    • Author(s)
      K.S. Kim, K. Ejima, S. Iwanami, Y. Fujita, H. Ohashi, Y. Koizumi, Y. Asai, S. Nakaoka, K. Watashi, K. Aihara, R.N. Thompson, R. Ke, A.S. Perelson and S. Iwami.
    • Journal Title

      PLOS Biology

      Volume: 19 Issue: 3 Pages: 3001128-3001128

    • DOI

      10.1371/journal.pbio.3001128

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-INTERNATIONAL-16K21723, KAKENHI-PROJECT-15H05707, KAKENHI-PUBLICLY-19H04839, KAKENHI-ORGANIZER-16H06429, KAKENHI-PROJECT-18H01139, KAKENHI-PUBLICLY-20H05042, KAKENHI-PROJECT-16H04845
  • [Journal Article] Endogenous retroviruses drive KRAB zinc-finger protein family expression for tumor suppression2020

    • Author(s)
      Ito Jumpei、Kimura Izumi、Soper Andrew、Coudray Alexandre、Koyanagi Yoshio、Nakaoka Hirofumi、Inoue Ituro、Turelli Priscilla、Trono Didier、Sato Kei
    • Journal Title

      Science Advances

      Volume: 6 Issue: 43 Pages: 3020-3020

    • DOI

      10.1126/sciadv.abc3020

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-20K07318, KAKENHI-PROJECT-20K15767, KAKENHI-PROJECT-18KK0447, KAKENHI-INTERNATIONAL-16K21723, KAKENHI-PUBLICLY-19H04826, KAKENHI-PROJECT-18H02662, KAKENHI-PROJECT-19J01713, KAKENHI-PROJECT-19J20488, KAKENHI-ORGANIZER-16H06429
  • [Journal Article] Multiomics Investigation Revealing the Characteristics of HIV-1-Infected Cells In?Vivo2020

    • Author(s)
      Aso Hirofumi、Nagaoka Shumpei、Kawakami Eiryo、Ito Jumpei、Islam Saiful、Tan Benjy Jek Yang、Nakaoka Shinji、Ashizaki Koichi、Shiroguchi Katsuyuki、Suzuki Yutaka、Satou Yorifumi、Koyanagi Yoshio、Sato Kei
    • Journal Title

      Cell Reports

      Volume: 32 Issue: 2 Pages: 107887-107887

    • DOI

      10.1016/j.celrep.2020.107887

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-20K15767, KAKENHI-PROJECT-18KK0447, KAKENHI-INTERNATIONAL-16K21723, KAKENHI-PLANNED-18H05411, KAKENHI-PUBLICLY-19H04826, KAKENHI-PROJECT-18H02662, KAKENHI-PROJECT-20H03724, KAKENHI-PROJECT-19J01713, KAKENHI-PROJECT-19J22802, KAKENHI-PROJECT-20J23299, KAKENHI-PROJECT-18KK0230, KAKENHI-PROJECT-16H06279, KAKENHI-ORGANIZER-16H06429
  • [Journal Article] Quantifying the antiviral effect of APOBEC3 on HIV-1 infection in humanized mouse model2020

    • Author(s)
      Tatsuya Kurusu, Kwang Su Kim, Yoshiki Koizumi, Shinji Nakaoka, Keisuke Ejima, Naoko Misawa, Yoshio Koyanagi, Kei Sato, Shingo Iwami
    • Journal Title

      Journal of Theoretical Biology

      Volume: 498 Pages: 110295-110295

    • DOI

      10.1016/j.jtbi.2020.110295

    • Peer Reviewed
    • Data Source
      KAKENHI-INTERNATIONAL-16K21723, KAKENHI-PUBLICLY-19H04826, KAKENHI-PROJECT-18H02662, KAKENHI-PROJECT-18H01139, KAKENHI-PROJECT-16H04845
  • [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

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-17KT0119, KAKENHI-PROJECT-18K17371, KAKENHI-INTERNATIONAL-16K21723, KAKENHI-ORGANIZER-16H06429, KAKENHI-PUBLICLY-17H05819, KAKENHI-PROJECT-16H04845, KAKENHI-PROJECT-18H01139, KAKENHI-PROJECT-15KT0107, KAKENHI-PROJECT-16K05265, KAKENHI-PROJECT-16K13777, KAKENHI-PROJECT-17H04085
  • [Journal Article] T-Cell mediated adaptive immunity and antibody-dependent enhancement in secondary dengue infection2019

    • Author(s)
      Sasmal Sourav Kumar、Takeuchi Yasuhiro、Nakaoka Shinji
    • Journal Title

      Journal of Theoretical Biology

      Volume: 470 Pages: 50-63

    • DOI

      10.1016/j.jtbi.2019.03.010

    • Peer Reviewed / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Journal Article] Calculation of final size for vector-transmitted epidemic model2019

    • Author(s)
      Tsubouchi Yu、Takeuchi Yasuhiro、Nakaoka Shinji
    • Journal Title

      Mathematical Biosciences and Engineering

      Volume: 16 Issue: 4 Pages: 2219-2232

    • DOI

      10.3934/mbe.2019109

    • Peer Reviewed / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265, KAKENHI-PROJECT-26400211
  • [Journal Article] Information and Statistical Analysis Pipeline for High-Throughput RNA Sequencing Data2019

    • Author(s)
      Nakaoka Shinji、Matsuyama Keita
    • Journal Title

      Methods in Molecular Biology

      Volume: 2109 Pages: 199-208

    • DOI

      10.1007/7651_2019_245

    • ISBN
      9781071602508, 9781071602515
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-15H05707
  • [Journal Article] A mathematical model of multiple delayed feedback control system of the gut microbiota?Antibiotics injection controlled by measured metagenomic data2018

    • Author(s)
      Dong Yueping、Takeuchi Yasuhiro、Nakaoka Shinji
    • Journal Title

      Nonlinear Analysis: Real World Applications

      Volume: 43 Pages: 1-17

    • DOI

      10.1016/j.nonrwa.2018.02.005

    • Peer Reviewed / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [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

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-15KT0107, KAKENHI-PROJECT-26287025, KAKENHI-INTERNATIONAL-16K21723, KAKENHI-ORGANIZER-16H06429, KAKENHI-PUBLICLY-17H05819, KAKENHI-PROJECT-16H04845, KAKENHI-PROJECT-18H01139, KAKENHI-PROJECT-16K05265, KAKENHI-PROJECT-16K13777, KAKENHI-PROJECT-17H04085
  • [Journal Article] Delayed feedback induced complex dynamics in an Escherichia coli and Tetrahymena system2018

    • Author(s)
      Dong Yueping、Sen Moitri、Banerjee Malay、Takeuchi Yasuhiro、Nakaoka Shinji
    • Journal Title

      Nonlinear Dynamics

      Volume: 94 Issue: 2 Pages: 1447-1466

    • DOI

      10.1007/s11071-018-4434-4

    • Peer Reviewed / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265, KAKENHI-PROJECT-15H05707
  • [Journal Article] Data-Driven Mathematical Modeling of Microbial Community Dynamics2018

    • Author(s)
      Nakaoka Shinji
    • Journal Title

      Handbook of Statistics

      Volume: 39 Pages: 93-130

    • DOI

      10.1016/bs.host.2018.08.001

    • ISBN
      9780444640727
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [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

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15KT0107, KAKENHI-PROJECT-16K05265, KAKENHI-PROJECT-17K07166, KAKENHI-PROJECT-16K13777, KAKENHI-PROJECT-17K19610, KAKENHI-PROJECT-16H04845, KAKENHI-PROJECT-16H05336, KAKENHI-PROJECT-26287025, KAKENHI-ORGANIZER-16H06429, KAKENHI-PROJECT-26460554, KAKENHI-PROJECT-17K10016, KAKENHI-PROJECT-16KT0111, KAKENHI-PROJECT-15H05707
  • [Journal Article] Dynamics of tumor immune escape via adaptive change2018

    • Author(s)
      Naoki Nakada, Mizuho Nagata, Yueping Dong, Yasuhiro Takeuchi, and Shinji Nakaoka
    • Journal Title

      NOLTA

      Volume: 9 Issue: 2 Pages: 295-304

    • DOI

      10.1587/nolta.9.295

    • NAID

      130006602760

    • ISSN
      2185-4106
    • Language
      English
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Journal Article] Dynamics of tumor immune escape via adaptive change2018

    • Author(s)
      Naoki Nakada, Mizuho Nagata, Yueping Dong, Yasuhiro Takeuchi, and Shinji Nakaoka
    • Journal Title

      Nonlinear Theory and Its Applications

      Volume: E9-N

    • NAID

      130006602760

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [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

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15KT0107, KAKENHI-PROJECT-16K13777, KAKENHI-PROJECT-16H04845, KAKENHI-PROJECT-26287025, KAKENHI-PROJECT-15H04423
  • [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

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16KT0111, KAKENHI-PROJECT-15KT0107, KAKENHI-PROJECT-16K13777, KAKENHI-PROJECT-16H04845, KAKENHI-PROJECT-26287025, KAKENHI-ORGANIZER-16H06429, KAKENHI-PUBLICLY-17H05813, KAKENHI-PROJECT-15K07166, KAKENHI-PROJECT-15KT0147
  • [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

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16KT0111, KAKENHI-PROJECT-15KT0107, KAKENHI-PROJECT-16K13777, KAKENHI-PROJECT-17K15197, KAKENHI-PROJECT-16H04845, KAKENHI-PROJECT-26287025, KAKENHI-PUBLICLY-17H05813, KAKENHI-PROJECT-15K07166, KAKENHI-PROJECT-15KT0147
  • [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

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-15KT0107, KAKENHI-PROJECT-16K05265, KAKENHI-PROJECT-16K13777, KAKENHI-PROJECT-16H04845, KAKENHI-PROJECT-26287025, KAKENHI-PROJECT-16H04682, KAKENHI-PROJECT-16J03672, KAKENHI-PROJECT-15KT0147, KAKENHI-PROJECT-15H05707
  • [Journal Article] Weighted enrichment method for prediction of transcription regulators from transcriptome and global chromatin immunoprecipitation data2016

    • Author(s)
      Eiryo Kawakami, Shinji Nakaoka, Tazro Ohta and Hiroaki Kitano
    • Journal Title

      Nucleic Acids Research

      Volume: 印刷中 Issue: 11 Pages: 5010-5021

    • DOI

      10.1093/nar/gkw355

    • Peer Reviewed / Acknowledgement Compliant / Open Access
    • Data Source
      KAKENHI-PROJECT-15K21631, KAKENHI-PROJECT-15KT0147, KAKENHI-PROJECT-16KT0196
  • [Journal Article] Quantifying the effect of Vpu on the promotion of HIV-1 replication in the humanized mouse model2016

    • 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: -

    • NAID

      120006353849

    • Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15KT0107
  • [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

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15K20936, KAKENHI-PROJECT-25871132
  • [Journal Article] Quantifying the effect of Vpu on the promotion of HIV-1 replication in the humanized mouse model2016

    • 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

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15KT0107
  • [Journal Article] Dynamics of epidermis: A mathematical model2016

    • Author(s)
      Shinji Nakaoka, Sota Kuwahara, Chang Hyeong Lee, Hyejin Jeon, Junho Lee, Yasuhiro Takeuchi, Yangjin Kim
    • Journal Title

      Applied Science

      Volume: 6 Issue: 9 Pages: 252-252

    • DOI

      10.3390/app6090252

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15KT0147, KAKENHI-PROJECT-16K05265
  • [Journal Article] Quantifying the effect of Vpu on the promotion of HIV-1 replication in the humanized mouse model2016

    • Author(s)
      Ikeda H, Nakaoka S, de Boer RJ, Morita S, Misawa N, Koyanagi Y, Aihara K, Sato K, Iwami S
    • Journal Title

      Retrovirology

      Volume: 13 Issue: 1 Pages: 23-23

    • DOI

      10.1186/s12977-016-0252-2

    • NAID

      120006353849

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24115008, KAKENHI-PROJECT-16KT0111, KAKENHI-PROJECT-15K07166, KAKENHI-PROJECT-15H05707
  • [Journal Article] Modelling Ebola virus dynamics: Implications for therapy.2016

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

      Antiviral Res

      Volume: 135 Pages: 62-73

    • DOI

      10.1016/j.antiviral.2016.10.004

    • Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16KT0111, KAKENHI-PROJECT-15K07166, KAKENHI-PROJECT-16K05265
  • [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: 909-938

    • Data Source
      KAKENHI-PROJECT-15KT0107
  • [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

    • Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15K07166, KAKENHI-PROJECT-15KT0107, KAKENHI-PLANNED-24115008, KAKENHI-PROJECT-25400194, KAKENHI-PROJECT-25871132
  • [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

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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

    • Peer Reviewed / Acknowledgement Compliant
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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

    • Peer Reviewed / Acknowledgement Compliant
    • Data Source
      KAKENHI-PROJECT-25800092, KAKENHI-PROJECT-25871132, KAKENHI-PROJECT-15K07166, KAKENHI-PROJECT-26287025
  • [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

    • Peer Reviewed / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15K07166, KAKENHI-PROJECT-25871132, KAKENHI-PROJECT-26287025
  • [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

    • Peer Reviewed / Acknowledgement Compliant
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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

    • Peer Reviewed / Acknowledgement Compliant
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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

    • Peer Reviewed / Acknowledgement Compliant
    • Data Source
      KAKENHI-PROJECT-25400194, KAKENHI-PROJECT-25871132
  • [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

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-25871132
  • [Presentation] Application of energy landscape analysis method to microbiome data2023

    • Author(s)
      Shinji Nakaoka
    • Organizer
      The 8th CIJK International Conference on Mathematical and Theoretical Biology
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Presentation] 数理・情報科学手法を用いた 食習慣と腸内細菌叢調節因子の探索2023

    • Author(s)
      中岡慎治
    • Organizer
      日本栄養・食糧学会シンポジウム
    • Invited
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Presentation] 生成AIを用いた論文要約システム2023

    • Author(s)
      中岡慎治
    • Organizer
      IIBMP2023
    • Invited
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Presentation] 数理科学を用いた腸内環境のデザインと保全にむけて2022

    • Author(s)
      中岡 慎治
    • Organizer
      腸内デザイン学会
    • Invited
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Presentation] 疑似時間再構成法の腸内細菌叢データへの適用2022

    • Author(s)
      中岡 慎治
    • Organizer
      日本微生物生態学会 第35回大会
    • Invited
    • Data Source
      KAKENHI-PROJECT-21K19813
  • [Presentation] エネルギー地形を利用した腸内細菌叢データの数理解析2019

    • Author(s)
      中岡慎治
    • Organizer
      第36回和漢医薬学会学術大会
    • Invited
    • Data Source
      KAKENHI-PROJECT-15H05707
  • [Presentation] 疑似細胞分化過程からデータ駆動型数理モデルを導出する試み2019

    • Author(s)
      中岡慎治
    • Organizer
      分子生物学会
    • Invited
    • Data Source
      KAKENHI-PROJECT-15H05707
  • [Presentation] Application of Energy Landscape Analysis for Cellular Differentiation Process2019

    • Author(s)
      Shinji Nakaoka
    • Organizer
      A3 foresight workshop ‘Modeling and Simulation of Hierarchical and Heterogeneous Flow Systems with Applications to Materials Science Ⅵ’
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15H05707
  • [Presentation] Trajectory inference of disease onset from non-time series microbiome datasets2018

    • Author(s)
      S. Nakaoka
    • Organizer
      South Lake Workshop in Bioinformatics and System Biology
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15H05707
  • [Presentation] Mathematical and informatics analysis of community composition change of the gut microbiota2018

    • Author(s)
      Shinji Nakaoka
    • Organizer
      2018 INTERNATIONAL WORKSHOP ON MATHEMATICAL BIOLOGY
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [Presentation] Trajectory inference of disease onset from non-time series microbiome datasets2018

    • Author(s)
      Shinji Nakaoka
    • Organizer
      South Lake Workshop in Bioinformatics and System Biology
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] Trajectory inference of HIV progression with microbiome data2018

    • Author(s)
      Shinji Nakaoka
    • Organizer
      SMB&JSMB2018
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] Compositional change of the gut microbiota in HIV infected humanized mice2018

    • Author(s)
      Shinji Nakaoka, Kei Sato
    • Organizer
      Next Gen Immunology
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] Invasibility threshold and persistence of bacterial species2018

    • Author(s)
      Shinji Nakaoka
    • Organizer
      Annual meeting of Korean Society for Industrial and Applied Mathematics
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] Mathematical and informatics analysis of community composition change of the gut microbiota2018

    • Author(s)
      Shinji Nakaoka
    • Organizer
      2018 INTERNATIONAL WORKSHOP ON MATHEMATICAL BIOLOGY
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] Development and applications of an optimization method to detect neighbor equilibria of a trajectory for Lotka-Volterra systems2018

    • Author(s)
      Shinji Nakaoka
    • Organizer
      12TH AIMS INTERNATIONAL CONFERENCE
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] Invasibility threshold and persistence of bacterial species2018

    • Author(s)
      S. Nakaoka
    • Organizer
      Annual meeting of Korean Society for Industrial and Applied Mathematics
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15H05707
  • [Presentation] Development and applications of an optimization method to detect neighbor equilibria of a trajectory for Lotka-Volterra systems2018

    • Author(s)
      S. Nakaoka
    • Organizer
      12th AIMS International Conference
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15H05707
  • [Presentation] Detection of responding factors to external perturbation in a microbial community2017

    • Author(s)
      Shinji Nakaoka
    • Organizer
      International Symposium on Nonlinear Theory and Its Applications
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] ウイルス感染時における常在細菌叢との宿主免疫応系の代謝相互作用に関するデータマイニング2017

    • Author(s)
      中岡慎治,佐藤佳
    • Organizer
      第90回日本細菌学会総会
    • Place of Presentation
      仙台、日本
    • Invited
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] Detection of responding factors to external perturbation in a microbial community2017

    • Author(s)
      Shinji Nakaoka
    • Organizer
      Proceedings of International Symposium on Nonlinear Theory and Its Applications
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [Presentation] Data mining of metabolic interactions in a gut microbial community induced by viral infection2017

    • Author(s)
      Shinji Nakaoka, Kei Sato (佐藤佳)
    • Organizer
      SMB 2017 Annual Meeting
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [Presentation] ウイルス感染時における常在細菌叢との宿主免疫応系の代謝相互作用に関するデータマイニング2017

    • Author(s)
      中岡慎治,佐藤佳
    • Organizer
      第90回日本細菌学会総会
    • Place of Presentation
      仙台国際センター
    • Invited
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [Presentation] Data mining of metabolic interactions in a gut microbial community induced by viral infection2017

    • Author(s)
      Shinji Nakaoka, Kei Sato
    • Organizer
      SMB 2017 Annual Meeting
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] 複合体が生み出すシグナル伝達確率的ダイナミクスの制御機構2016

    • Author(s)
      川上英良, 古関恵太, 中岡慎治
    • Organizer
      第39回 日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜(神奈川県・横浜市)
    • Invited
    • Data Source
      KAKENHI-PROJECT-16KT0196
  • [Presentation] 複合体が生み出すシグナル伝達確率的ダイナミクスの制御機構2016

    • Author(s)
      川上英良, 古関恵太, 中岡慎治
    • Organizer
      第39回 日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜
    • Invited
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [Presentation] Exploration of combinatorial emergence in coupled boolean network systems2016

    • Author(s)
      Shinji Nakaoka
    • Organizer
      The 22nd International Conference on Difference Equations and Applications
    • Place of Presentation
      大阪, 日本
    • Year and Date
      2016-07-24
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [Presentation] 細菌感染を軸としたマルチスケールシミュレーション2016

    • Author(s)
      中岡慎治
    • Organizer
      第89回日本細菌学会総会
    • Place of Presentation
      大阪国際交流センター
    • Year and Date
      2016-03-23
    • Invited
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [Presentation] Development of a computational grammar for immune cell processes2016

    • Author(s)
      中岡慎治
    • Organizer
      日本数理生物学会年会
    • Place of Presentation
      博多、日本
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] Investigation for population kinetics of reservoir cells in HIV infection2016

    • Author(s)
      Shinji Nakaoka
    • Organizer
      A3 Workshop on Interdisciplinary Research Connecting Mathematics and Biology
    • Place of Presentation
      北京, 中国
    • Year and Date
      2016-04-22
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] Exploration of combinatorial emergence in coupled boolean network systems2016

    • Author(s)
      Shinji Nakaoka
    • Organizer
      The 22nd International Conference on Difference Equations and Applications
    • Place of Presentation
      大阪, 日本
    • Year and Date
      2016-07-24
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K05265
  • [Presentation] 階層間フィードバックを考慮した生命系マルチスケール数理モデル研究2016

    • Author(s)
      中岡慎治
    • Organizer
      非線形現象の数値シミュレーションと解析
    • Place of Presentation
      北海道大学
    • Year and Date
      2016-03-08
    • Invited
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [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
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-25871132
  • [Presentation] 遺伝子発現から転写制御因子を予測する確率的Gene Set Enrichment解析2015

    • Author(s)
      川上英良、中岡慎治、北野宏明
    • Organizer
      BMB2015 (第38回日本分子生物学会年会、第88回日本生化学会大会 合同大会)
    • Place of Presentation
      神戸ポートアイランド
    • Year and Date
      2015-12-04
    • Invited
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [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
    • Data Source
      KAKENHI-PROJECT-25871132
  • [Presentation] Micro-ecomics を支える数理2015

    • Author(s)
      中岡慎治
    • Organizer
      第30回微生物生態学会
    • Place of Presentation
      土浦市役所 亀城プラザ
    • Year and Date
      2015-10-20
    • Invited
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [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
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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
    • Invited
    • Data Source
      KAKENHI-PROJECT-25871132
  • [Presentation] 人工生態系に関連した理論の発展2015

    • Author(s)
      中岡慎治
    • Organizer
      「細胞を創る」研究会 8.0
    • Place of Presentation
      大阪大学吹田キャンパス 銀杏会館
    • Year and Date
      2015-11-13
    • Invited
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [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
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-25871132
  • [Presentation] Impaired balance between antagonistic transcriptional modules during the progression of inflammatory skin disease2015

    • Author(s)
      Eiryo Kawakami, Hisahiro Yoshida, Takuwa Yasuda, Shinji Nakaoka, Hiroaki Kitano
    • Organizer
      Functional Genomics and Systems Biology: From Model Organisms to Human Health
    • Place of Presentation
      Welcome Trust Sanger Institute
    • Year and Date
      2015-10-29
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-15KT0147
  • [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
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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
    • Invited
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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
    • Data Source
      KAKENHI-PROJECT-25871132
  • [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
    • Data Source
      KAKENHI-PROJECT-25871132
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