Researchers

MIYASHITA Naoyuki

MIYASHITA Naoyuki
Professor
Faculty Department of Computational Systems Biology / Graduate School of Biology-Oriented Science and Technology
Researchmap https://researchmap.jp/yukimya

Education and Career

Education

  • 1992/04 - 1997/03 , University of Electro-Communications, Department of Electro-Communications,
  • 1997/04 - 1999/03 , University of Electro-Communications, Department of Electro-Communications,
  • 1999/04 - 2003/03 , The Graduage University for Advanced Study, 数物科学研究科,

Academic & Professional Experience

  • Oct. 2026 - Today , Kindai University Faculty of Biology-Oriented Science and Technology Department of Computational Systems Biology Professor
  • Apr. 2026 - Today , KINDAI University Major in Biological Systems Engineering, Graduate School of Biology-Oriented Science and Technology 教授
  • Apr. 2026 - Today , The University of Electro-Communications Graduate School of Informatics and Engineering Department of Engineering Science 客員教授
  • Apr. 2026 - Sep. 2026 , Kindai University Department of Computational Systems Biology, Faculty of Biology-Oriented Science and Technology 教授
  • Apr. 2018 - Mar. 2026 , University of Electro-Communicatins 基盤理工学専攻 Visiting Associate Professor
  • Apr. 2017 - Mar. 2026 , KINDAI University Department of Computational Systems Biology, Faculty of Biology-Oriented Science and Technology Associate Professor
  • Apr. 2016 - Mar. 2026 , Kindai University 生物理工学研究科 生体システム工学専攻 准教授
  • Apr. 2018 - Mar. 2024 , RIKEN Center for Biosystems Dynamics Research Visiting Scientist
  • Aug. 2015 - Mar. 2024 , RIKEN AICS Visiting Scientists
  • Apr. 2015 - Mar. 2018 , RIKEN QBiC Visiting Scientist
  • Apr. 2015 - Mar. 2017 , KINDAI University Biology Oriented Science & Technology Associate Professor
  • Apr. 2011 - Mar. 2015 , RIKEN AICS Research Scientist
  • Apr. 2011 - Mar. 2015 , RIKEN QBiC Research Scientist
  • Jul. 2013 - Jul. 2013 , Kobe University 理学研究科 非常勤講師
  • Apr. 2011 - Mar. 2013 , RIKEN ISLiM Research Scientist
  • Dec. 2007 - Mar. 2011 , RIKEN ISLiM Research Scientist
  • Apr. 2007 - Nov. 2007 , GIFU University CEID Assistant Professor
  • Apr. 2005 - Mar. 2007 , BOSTON University Chemistry Department Research Associate
  • Apr. 2003 - Mar. 2005 , The University of Tokyo IMCB Post Doctoral fellow
  • Jun. 2001 - Feb. 2003 , 岡崎国立共同研究機構 RA

Research Activities

Research Areas

  • Informatics , Biological, health, and medical informatics
  • Natural sciences , Bio-, chemical, and soft-matter physics

Research Interests

Artificial Intelligence for biophysics, シミュレーション, Molecular mechanism of Alzheimer's disease, replica-exchange, 混合膜, ラフト

Published Papers

  1. A minimal RNA-cleaving DNAzyme and its catalytic mechanism
    Kazuhiko Yamasaki; Rika Inomata; Tomoko Yamasaki; Tomomi Kubota; Naoyuki Miyashita; Koh Takeuchi; Makoto Miyagishi
    Nucleic Acids Research  54  (2)  , gkaf1502-, 27, Jan. 2026  , Refereed
  2. Characterization of anisotropic pore structure and dense selective layer of capillary membranes for long-term ECMO by cross-sectional ion-milling method
    Makoto Fukuda; Kazunori Sadano; Tomoki Maeda; Eri Murata; Naoyuki Miyashita; Tsutomu Tanaka; Tomohiro Mori; Akane Saito; Kiyotaka Sakai
    Journal of Artificial Organs  20, Aug. 2024  , Refereed
  3. ARCaDia: single-round screening of a DNA-type targeted covalent binder possessing a latent warhead
    Masumi Taki; Masayasu Kuwahara; Chaohui Li; Naoko Tomoda; Naoyuki Miyashita; Tetsuo Kan; Jay Yang
    Chemical Communications  60  (100)  , 14964-14967, 2024  , Refereed

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Conference Activities & Talks

  1. Applications of AI-Based Non-Linear Morphing for Conformational Changes in Proteins , Naoyuki Miyashita , JCUP XIII --Tokyo , 18, Sep. 2026
  2. 全原子モデル分子動力学シミュレーションを用いたモデル３重螺旋コラーゲンの二量体化形成メカニズムの解析 , 阿戸菜乃佳; 樫山佳広; 釜野白桃; 三科柾; 永井宏平; 森本康一; 宮下尚之 , 第81回日本物理学会年会 , 16, Sep. 2026
  3. AI非線形構造変化モーフィング法(MOVE-DM)と粗視化モデル分子動力学シミュレーションを用いたモノアミン酸化酵素B(MAO-B)の膜貫通部位の構造変化と脂質分布の関係 , 鈴川祐生; 樫山佳広; 樫山佳広; 田所良祟; 清岡亮太; 大多和克紀; 宮下尚之 , 第81回日本物理学会年会 , 16, Sep. 2026

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MISC

  1. 粗視化分子動力学シミュレーションを用いたECMO中空糸膜を介した血液中二酸化炭素・酸素交換メカニズム , 芝崎亮汰; 中条貴裕; 福田誠; 福田誠; 宮下尚之; 宮下尚之 , 日本蛋白質科学会年会(Web) , 25th , 2025
  2. 体外式膜型人工肺ECMOの中空糸膜中の水と酸素のダイナミクスの単純なモデルによる検討 , 芝崎亮汰; 中条貴裕; 福田誠; 福田誠; 宮下尚之; 宮下尚之 , 分子シミュレーション討論会講演要旨集 , 38th , 2024
  3. 新規ゲノム編集ツールTiDを用いたヒト細胞でのゲノム編集 , 和田 直樹; 村上 愛美; 丸井 和也; 宮下 尚之; 刑部 祐里子; 刑部 敬史 , 日本生物工学会大会講演要旨集 , 2021年 , 103 , 103 , Oct. 2021

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Research Grants & Projects

  1. Japan Society for the Promotion of Science, Grants-in-Aid for Scientific Research, Computational Elucidation of the Dynamic Control Mechanisms of the Alzheimer's Disease alpha-Cleavage Pathway on the Membrane Reaction Fields , Kindai University
  2. Japan Society for the Promotion of Science, Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (B), フラビウイルス科の各ウイルスを厳密に区別できるモノクローナル抗体の開発 , High Energy Accelerator Research Organization
  3. Japan Society for the Promotion of Science, Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (C), 血液凝固機能を阻害する非天然型DNAアプタマー薬剤の構造とヌクレアーゼ耐性機構 , The University of Electro-Communications

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