Mizukami Taku 水上卓

… Alternative Names

MIZUKAMI Taku 水上卓

水上卓ミズカミタク

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Researcher Number	50270955
Other IDs
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Affiliation (Current)	2025: 北陸先端科学技術大学院大学, 先端科学技術研究科, 助教
Affiliation (based on the past Project Information) *help	2020 – 2022: 北陸先端科学技術大学院大学, 先端科学技術研究科, 助教 2019: 北陸先端科学技術大学院大学, マテリアルサイエンス研究科, 助教 2016 – 2018: 北陸先端科学技術大学院大学, 先端科学技術研究科, 助教 2013 – 2015: 北陸先端科学技術大学院大学, マテリアルサイエンス研究科, 助教 2008: 北陸先端科学技術大学院大学, マテリアルサイエンス研究科, 助教 … More 2005: 北陸先端科学技術大学院大学, 材料科学研究科, 助手 2000 – 2001: 北陸先端科学技術大学院大学, 材料科学研究科, 助手 1995: 北陸先端科学技術大学院大学, 材料科学研究科, 助手 Less
Review Section/Research Field	Principal Investigator Biophysics / Biophysics Except Principal Investigator Basic Section 29010:Applied physical properties-related / Physical chemistry / Biophysics / Science and Engineering
Keywords	Principal Investigator Lasso正則化 / ドッキング / 分子動力学 / 蛋白質 / 機械学習 / 特徴空間 / データマイニング / 分子動力学計算 / 水和 / タンパク質 … More / 赤外パルスレーザー / 反応速度分布 / 反応制御 / バクテリオロドプシン / レチナール蛋白質 / IRレーザーパルス … More Except Principal Investigator タンパク質 / バクテリオロドプシン / 磁性材料探索 / マテリアルインフォマティクス / 説明可能なAI / 結晶性磁性材料 / データ駆動型材料探索 / 第一原理計算 / データ駆動型AI / 磁性材料 / インシリコ創薬 / 分子動力学シミュレーション / 分子動力学法 / 自由エネルギー / 機械学習 / 分子ドッキング / 分子シミュレーション / 構造機能相関 / 触媒機構 / 炭酸脱水酵素 / MM / QM / NMR / プロトン移動 / 反応機構 / 触媒 / 互変異性 / ヒスチジン / 機能 / 酵素 / 振動現象 / 耐性菌 / アンチポーター / プロトンポンプ / pH感応蛍光色素 / 細胞内pH / 高度好塩菌 / 色素形成 / シクロデキストリン / 疎水性相互作用 / 位置選択性 / 光異性化反応 / レチノクロム / レチナ-ル Less

Magnetic materials exploration using data-driven AI that can explain structure-property mechanisms
- Principal Investigator
  
  DAM Hieu Chi
- Project Period (FY)
  2020 – 2022
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 29010:Applied physical properties-related
- Research Institution
  Japan Advanced Institute of Science and Technology
Development of target-based molecular docking method by means of machine learning and molecular simulation
- Principal Investigator
  
  Saito Hiroaki
- Project Period (FY)
  2016 – 2019
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Physical chemistry
- Research Institution
  Institute of Physical and Chemical Research
Datamining approach for protein-ligand interaction mediated by hydration waterPrincipal Investigator
- Principal Investigator
  
  Mizukami Taku
- Project Period (FY)
  2013 – 2016
- Research Category
  
  Grant-in-Aid for Challenging Exploratory Research
- Research Field
  
  Biophysics
- Research Institution
  Japan Advanced Institute of Science and Technology
NMR and MM Analysis of Tautomerization of His64 Coupled to Ionization of Zinc-bound Solvent during Proton Transfer in Carbonic Anhydrase
- Principal Investigator
  
  SHIMAHARA Hideto
- Project Period (FY)
  2007 – 2008
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  Biophysics
- Research Institution
  Japan Advanced Institute of Science and Technology
強い光照射による単細胞の忌避と振動応答反応過程の動的計測
- Principal Investigator
  
  辻本和雄
- Project Period (FY)
  2005
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Science and Engineering
- Research Institution
  Japan Advanced Institute of Science and Technology
赤外パルスレーザによるバクテリオロドプシンプロトンポンプ機能の制御Principal Investigator
- Principal Investigator
  
  水上卓
- Project Period (FY)
  2000 – 2001
- Research Category
  
  Grant-in-Aid for Exploratory Research
- Research Field
  
  Biophysics
- Research Institution
  Japan Advanced Institute of Science and Technology
励起状態を制御する光反応場の研究
- Principal Investigator
  
  辻本和雄
- Project Period (FY)
  1995
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Research Institution
  Japan Advanced Institute of Science and Technology

All 2018 2017 2016 2015 2014 2013 2008 Other

All Journal Article Presentation

[Journal Article] Molecular dynamics study of binary POPC bilayers: molecular condensing effects on membrane structure and dynamics2018
- Author(s)
  Hiroaki Saito, Tetsuya Morishita, Taku Mizukami, Ken-ichi Nishiyama, Kazutomo Kawaguchi, Hidemi Nagao
- Journal Title
  
  Journal of Physics: Conference Series
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-16K05648
[Journal Article] Molecular dynamics study of binary POPC bilayers: molecular condensing effects on membrane structure and dynamics2018
- Author(s)
  Saito Hiroaki、Morishita Tetsuya、Mizukami Taku、Nishiyama Ken-ichi、Kawaguchi Kazutomo、Nagao Hidemi
- Journal Title
  
  Journal of Physics: Conference Series
  
  Volume: 1136 Pages: 012022-012022
- DOI
  10.1088/1742-6596/1136/1/012022
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15KT0073, KAKENHI-PROJECT-16K05648, KAKENHI-PROJECT-18KK0197, KAKENHI-PUBLICLY-18H04636, KAKENHI-PROJECT-17H02209
[Journal Article] Prediction of Solvation Free Energy of Proteins: Molecular Dynamics Simulation and QSPR Model Approach2015
- Author(s)
  Sri R. Natasia, Hiroaki Saito, Taku Mizukami, Kazutomo Kawaguchi and Hidemi Nagao
- Journal Title
  
  Recent Development in Computational Science
  
  Volume: 6 Pages: 100-111
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-25650050
[Journal Article] Molecular Dynamics Study of Gramicidin A in Lipid Bilayer: Electrostatic Map and Ion Conduction2014
- Author(s)
  Hiroaki SAITO, Masashi IWAYAMA, Kazutomo KAWAGUCHI, Taku MIZUKAMI, Takeshi MIYAKAWA, Masako TAKASU, and Hidemi NAGAO
- Journal Title
  
  JPS Conf. Proc
  
  Volume: volume 1 Pages: 012053-012053
- DOI
  10.7566/jpscp.1.012053
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-23750008, KAKENHI-PROJECT-25650050, KAKENHI-PROJECT-26400429
[Journal Article] Free Energy Calculation of Docking Structure of Azurin(I)-Cyto- chrome c551(III) Complex Systems by using the Energetic Representation2008
- Author(s)
  西川佳吾, 水上卓, 島原秀登, 長尾秀実, (他4名, 6番目)
- Journal Title
  
  AIP Conference Proceedings 982巻
  
  Pages: 780-783
- Data Source
  KAKENHI-PROJECT-19770128
[Journal Article] Tautomerism of histidine 64 associated with proton transfer in catalysis of Carbonic Anhydrase2008
- Author(s)
  島原秀登, 吉田卓也, 水上卓, 中沢隆, 長尾秀実, 大久保忠恭, 小林祐次, (他2名, 1番目)
- Journal Title
  
  FASEB Journal 22巻
- Data Source
  KAKENHI-PROJECT-19770128
[Journal Article] Theoretical Study of Free Energy in Docking Stability of Azurin(II)-Cytochrome c551(II) Complex System2008
- Author(s)
  山本哲徳, 水上卓, 島原秀登, 長尾秀実, (他4名, 6番目)
- Journal Title
  
  AIP Conference Proceedings 982巻
  
  Pages: 784-787
- Data Source
  KAKENHI-PROJECT-19770128
[Presentation] Free energy profiles of lipid translocation across binary POPC bilayer mixtures: a molecular dynamics study2018
- Author(s)
  Hiroaki Saito, Tetsuya Morishita, Taku Mizukami, Kazutomo Kawaguchi, Hidemi Nagao
- Organizer
  Joint Conference of EMLG/JMLG Annual Meeting 2018 and 41st Symposium on Solution Chemistry of Japan
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K05648
[Presentation] Molecular dynamic study on solvation free energy of water and model protein2018
- Author(s)
  Taku Mizukami, Hiroaki Saito
- Organizer
  XXIX IUPAP Conference in Computational Physics (CCP2018)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K05648
[Presentation] Molecular dynamics study on the free energy profiles of lipid translocation across binary POPC bilayer mixtures2018
- Author(s)
  Hiroaki Saito, Tetsuya Morishita, Taku Mizukami, Kazutomo Kawaguchi, Hidemi Nagao
- Organizer
  XXIX IUPAP Conference in Computational Physics (CCP2018)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K05648
[Presentation] 混合脂質膜における脂質分子の膜透過自由エネルギー曲線2017
- Author(s)
  齋藤大明，森下徹也，水上卓，川口一朋，長尾秀実
- Organizer
  分子科学討論 2017
- Data Source
  KAKENHI-PROJECT-16K05648
[Presentation] Free energy profiles of lipid translocation across mixed lipid bilayers: a molecular dynamics study2017
- Author(s)
  Hiroaki Saito, Tetsuya Morishita, Taku Mizukami, Ken-ichi Nishiyama, Kazutomo Kawaguchi, and Hidemi Nagao
- Organizer
  onference on computational physics 2017 (CCP2017)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K05648
[Presentation] Development of a pharmacokinetics prediction system using multiscale integrated modeling: 5. Prediction of sites of drug metabolism by cytochrome P450 by molecular simulation2017
- Author(s)
  齋藤大明, 水上卓, 平野秀典, 大塚教雄, 沖本憲明, 泰地真弘人
- Organizer
  CBI学会2017
- Data Source
  KAKENHI-PROJECT-16K05648
[Presentation] Machine-learning approach for behavior of hydration water; A pathway to discovery and prediction for biophysical and physiological properties of protein2017
- Author(s)
  Taku Mizukami, Nguyen Viet Cuong, Pham Tien Lam, Dam Heiu Chi
- Organizer
  International Symposium on Biophysics of Rhodopsins Celebrating Prof. Yoshinori Shichida
- Place of Presentation
  京都大学（京都府京都市）
- Year and Date
  2017-05-11
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] 分子シミュレーションによるタンパク質の結合ポケット解析と基質の結合構造予測2016
- Author(s)
  齋藤大明, 水上卓, 沖本憲明, 泰地真弘人
- Organizer
  第30回分子シミュレーション討論会
- Place of Presentation
  大阪大学（大阪府・豊中市）
- Data Source
  KAKENHI-PROJECT-16K05648
[Presentation] アンサンブルドッキングを用いたCYP1A2化合物の代謝部位予測2016
- Author(s)
  齋藤大明, 水上卓, 平野秀典, 大塚教雄, 沖本憲明, 泰地真弘人
- Organizer
  生物物理学会　第54回年会
- Place of Presentation
  つくば国際会議場（茨城県つくば市）
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] 機械学習によるタンパク質親水/疎水表面における水分子の動的振る舞いの解析2016
- Author(s)
  水上卓, Viet Cuong Nguyen, Ho Tu Bao, and Dam Hieu Chi
- Organizer
  生物物理学会　第54回年会
- Place of Presentation
  つくば国際会議場（茨城県つくば市）
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] 分子ドッキングと分子動力学シミュレーションを用いたシトクロム P450(CYP1A2)活性部位における化合物の結合分布解析2016
- Author(s)
  齋藤大明, 水上卓, 平野秀典, 大塚教雄, 沖本憲明, 泰地真弘人
- Organizer
  分子科学討論会
- Place of Presentation
  神戸ファッションマート（兵庫県・神戸市）
- Data Source
  KAKENHI-PROJECT-16K05648
[Presentation] 分子シミュレーションを用いたCYP1A2に対する薬剤代謝部位予測2016
- Author(s)
  齋藤大明, 水上卓, 平野秀典, 大塚教雄, 沖本憲明, 泰地真弘人
- Organizer
  CBI学会2016年大会
- Place of Presentation
  タワーホール船堀
- Invited
- Data Source
  KAKENHI-PROJECT-16K05648
[Presentation] アンサンブルドッキングを用いたCYP1A2に対する薬剤代謝部位予測2016
- Author(s)
  齋藤大明, 水上卓, 平野秀典, 大塚教雄, 沖本憲明, 泰地真弘人
- Organizer
  第54回日本生物物理年会
- Place of Presentation
  つくば国際会議場（茨城県・つくば市）
- Data Source
  KAKENHI-PROJECT-16K05648
[Presentation] Simulation-based data-mining approach for the protein hydration water behavior2015
- Author(s)
  Taku Mizukami, Nguyen Viet Cuong, Ho Tu Bao, and Dam Hieu Chi
- Organizer
  Pacifichem2015
- Place of Presentation
  USA, Honolulu
- Year and Date
  2015-12-14
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] Hydration Water Behavior Characterization by Simulation-Based Data-Mining Approach2015
- Author(s)
  Taku Mizukami, Viet Cuong Nguen, Tu Bao Ho, Hieu Chi Dam
- Organizer
  The 8th Conference of the Asian Consortium on Computational Materials Science (ACCMS-8)
- Place of Presentation
  台湾，台北市
- Year and Date
  2015-06-16
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] シミュレーション・データマイニングによるリガンド結合系における水分子の振る舞い2015
- Author(s)
  水上卓, グェンベトクン, ホーツーバオ, ダムヒョウチ
- Organizer
  生物物理学会年会
- Place of Presentation
  石川県金沢市，金沢大学
- Year and Date
  2015-11-25
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] L1型正則化線形回帰モデルを用いたシミュレーションデータからの二元合金の物性予測2013
- Author(s)
  鈴木大輔，川崎隆史, 杉山歩，水上卓,Dam Hieu Chi, Ho Tu Bao
- Organizer
  第7回分子科学討論会
- Place of Presentation
  京都テルサ
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] A novel category of protein hydration water classified by simulated data mining approach2013
- Author(s)
  Taku Mizukami, Ayumu Sugiyama, Dam Hieu Chi, Ho Tu Bao
- Organizer
  ACCMS-7
- Place of Presentation
  Thailand, Korat
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] Structural analysis of protein hydration water by means of sparse model2013
- Author(s)
  水上卓, 杉山歩, 川崎隆史, 高木啓行, ホー・ツー・バオ, ダム・ヒョウ・チ
- Organizer
  第7回分子科学討論会
- Place of Presentation
  京都テルサ
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] シミュレーション・データマイニングアプローチによる蛋白質ドッキング過程における水和水ダイナミクス2013
- Author(s)
  水上卓, 杉山歩, ホー・ツー・バオ, ダム・ヒョウ・チ
- Organizer
  生物物理学会　第51回年会
- Place of Presentation
  京都国際会議場
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] Hydration Water Behavior Characterization by Simulation-Based Data-Mining Approach
- Author(s)
  Taku Mizukami, Nguyen Viet Cuong, Ho Tu Bao, and Dam Hieu Chi
- Organizer
  ACCMS8 (Conference of Asian Consortium on Computational Materials Science)
- Place of Presentation
  NTUST,Taipei, Taiwan
- Year and Date
  2015-06-16 – 2015-06-18
- Data Source
  KAKENHI-PROJECT-25650050
[Presentation] Hydration water behavior classified by mixture model : Simulation data-mining approach
- Author(s)
  Taku Mizukami, Viet Cuong Nguen, Tu Bao Ho, Hieu Chi Dam
- Organizer
  第52回日本生物物理学会年会
- Place of Presentation
  北海道札幌市・札幌コンベンションセンター
- Year and Date
  2014-09-13 – 2014-09-15
- Data Source
  KAKENHI-PROJECT-25650050

1. 辻本和雄 (50017414)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
2. SHIMAHARA Hideto (40313704)

# of Collaborated Projects: 1 results

# of Collaborated Products: 3 results
3. OHKUBO Tadayasu (90272997)

# of Collaborated Projects: 1 results

# of Collaborated Products: 1 results
4. YOSHIDA Takuya (00294116)

# of Collaborated Projects: 1 results

# of Collaborated Products: 1 results
5. KOBAYASHI Yuji (20127228)

# of Collaborated Projects: 1 results

# of Collaborated Products: 1 results
6. NAKAZAWA Takashi (30175492)

# of Collaborated Projects: 1 results

# of Collaborated Products: 1 results
7. SAKIYAMA Fumio (40029947)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
8. NAGAO Hidemi (30291892)

# of Collaborated Projects: 1 results

# of Collaborated Products: 3 results
9. Saito Hiroaki (40506820)

# of Collaborated Projects: 1 results

# of Collaborated Products: 12 results
10. DAM Hieu Chi (70397230)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
11. 高橋哲郎 (90133769)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
12. SUGIMORI Kimikazu

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
13. 西山賢一

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results

Mizukami Taku 水上 卓

MIZUKAMI Taku 水上 卓

水上 卓 ミズカミ タク

Research Projects

Research Products

Co-Researchers

Magnetic materials exploration using data-driven AI that can explain structure-property mechanisms

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Development of target-based molecular docking method by means of machine learning and molecular simulation

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

Datamining approach for protein-ligand interaction mediated by hydration waterPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

NMR and MM Analysis of Tautomerization of His64 Coupled to Ionization of Zinc-bound Solvent during Proton Transfer in Carbonic Anhydrase

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

強い光照射による単細胞の忌避と振動応答反応過程の動的計測

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

赤外パルスレーザによるバクテリオロドプシンプロトンポンプ機能の制御Principal Investigator

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

励起状態を制御する光反応場の研究

Principal Investigator

Project Period (FY)

Research Category

Research Institution

[Journal Article] Molecular dynamics study of binary POPC bilayers: molecular condensing effects on membrane structure and dynamics2018

Author(s)

Journal Title

Data Source

[Journal Article] Molecular dynamics study of binary POPC bilayers: molecular condensing effects on membrane structure and dynamics2018

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Prediction of Solvation Free Energy of Proteins: Molecular Dynamics Simulation and QSPR Model Approach2015

Author(s)

Journal Title

Data Source

[Journal Article] Molecular Dynamics Study of Gramicidin A in Lipid Bilayer: Electrostatic Map and Ion Conduction2014

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Free Energy Calculation of Docking Structure of Azurin(I)-Cyto- chrome c551(III) Complex Systems by using the Energetic Representation2008

Author(s)

Journal Title

Data Source

[Journal Article] Tautomerism of histidine 64 associated with proton transfer in catalysis of Carbonic Anhydrase2008

Author(s)

Journal Title

Data Source

[Journal Article] Theoretical Study of Free Energy in Docking Stability of Azurin(II)-Cytochrome c551(II) Complex System2008

Author(s)

Journal Title

Data Source

[Presentation] Free energy profiles of lipid translocation across binary POPC bilayer mixtures: a molecular dynamics study2018

Author(s)

Organizer

Mizukami Taku 水上卓

MIZUKAMI Taku 水上卓

水上卓ミズカミタク

[Presentation] 分子シミュレーションによるタンパク質の結合ポケット解析と基質の結合構造予測2016