MATSUNAGA YASUHIRO 松永康佑

… Alternative Names

Matsunaga Yasuhiro 松永康佑

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Researcher Number	60464525
Other IDs	https://orcid.org/0000-0003-2872-3908
Affiliation (Current)	2025: 埼玉大学, 理工学研究科, 准教授
Affiliation (based on the past Project Information) *help	2024: 埼玉大学, 理工学研究科, 准教授 2021 – 2023: 埼玉大学, 情報メディア基盤センター, 准教授 2020: 埼玉大学, 理工学研究科, 准教授 2015: 国立研究開発法人理化学研究所, 計算科学研究機構, 研究員 2014: 独立行政法人理化学研究所, 計算科学研究機構, 研究員 2013: 独立行政法人理化学研究所, 計算科学研究機構, 基礎科学特別研究員 2012: 独立行政法人理化学研究所, 粒子系生物物理研究チーム, 基礎科学特別研究員
Review Section/Research Field	Principal Investigator Medium-sized Section 43:Biology at molecular to cellular levels, and related fields / Basic Section 60100:Computational science-related / Complex systems / Biophysics
Keywords	Principal Investigator 分子動力学シミュレーション / 分子シミュレーション / ドッキング / ウイルス外殻 / 準等価理論 / データ同化 / タンパク質 / タイリング理論 / エンドツーエンド微分可能 / アジョイント法 … More / 誤差逆伝播法 / 微分可能プログラミング / 核形成 / ドッキング計算 / 外殻 / カプシド / ドッキングシミュレーション / タイリング / ベイズ推定 / 状態遷移 / FRET計測 / フォールディング / 1分子FRET計測 / 機械学習 / 分子動力学 / シミュレーション / 多剤排出トランスポーター / アデニル酸キナーゼ / 統計数理 Less

Integration of Experiments and Biomolecular Modeling Through an End-to-End Differentiable ApproachPrincipal Investigator
- Principal Investigator
  
  松永康佑
- Project Period (FY)
  2023 – 2025
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 60100:Computational science-related
- Research Institution
  Saitama University
タイリング理論と分子科学の協働によるウイルス外殻構造の新たな設計原理の探究Principal Investigator
- Principal Investigator
  
  松永康佑
- Project Period (FY)
  2023 – 2025
- Research Category
  
  Grant-in-Aid for Challenging Research (Exploratory)
- Review Section
  
  Medium-sized Section 43:Biology at molecular to cellular levels, and related fields
- Research Institution
  Saitama University
Bottom-up design of virus capsids using tilingPrincipal Investigator
- Principal Investigator
  
  Matsunaga Yasuhiro
- Project Period (FY)
  2020 – 2022
- Research Category
  
  Grant-in-Aid for Challenging Research (Exploratory)
- Review Section
  
  Medium-sized Section 43:Biology at molecular to cellular levels, and related fields
- Research Institution
  Saitama University
パスサンプリングによる1分子FRET光子計数データのモデリングPrincipal Investigator
- Principal Investigator
  
  松永康佑
- Project Period (FY)
  2014 – 2015
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Complex systems
- Research Institution
  Institute of Physical and Chemical Research
Statistical analysis of conformational changes of proteinsPrincipal Investigator
- Principal Investigator
  
  MATSUNAGA YASUHIRO
- Project Period (FY)
  2012 – 2013
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  Biophysics
- Research Institution
  Institute of Physical and Chemical Research

All 2023 2022 2021 2020 2016 2015 2014 2013 2012 Other

All Journal Article Presentation Book

[Book] 実験医学増刊 Vol.38 No.20 機械学習を生命科学に使う！2020
- Author(s)
  松永康佑
- Total Pages
  8
- Publisher
  羊土社
- ISBN
  9784758103916
- Data Source
  KAKENHI-PROJECT-20K21380
[Journal Article] Development of Hidden Markov Modeling of Molecular Orientations and Structures from High-Speed Atomic Force Microscopy Time-Series Images2023
- Author(s)
  Tomonori Ogane, Daisuke Noshiro, Toshio Ando, Atsuko Yamashita, Yuji Sugita, Yasuhiro Matsunaga
- Journal Title
  
  PLoS Comp. Biol.
  
  Volume: 18 Issue: 12 Pages: e1010384-e1010384
- DOI
  10.1371/journal.pcbi.1010384
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-19H05645, KAKENHI-PROJECT-22H00405, KAKENHI-PROJECT-20H03195, KAKENHI-PROJECT-20K21380
[Journal Article] End-to-end differentiable blind tip reconstruction for noisy atomic force microscopy images2023
- Author(s)
  Matsunaga Yasuhiro、Fuchigami Sotaro、Ogane Tomonori、Takada Shoji
- Journal Title
  
  Scientific Reports
  
  Volume: 13 Issue: 1
- DOI
  10.1038/s41598-022-27057-2
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-20K21380
[Journal Article] Representation of Protein Dynamics Disentangled by Time-Structure-Based Prior2023
- Author(s)
  Ishizone Tsuyoshi、Matsunaga Yasuhiro、Fuchigami Sotaro、Nakamura Kazuyuki
- Journal Title
  
  Journal of Chemical Theory and Computation
  
  Volume: 20 Issue: 1 Pages: 436-450
- DOI
  10.1021/acs.jctc.3c01025
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23K18105, KAKENHI-PROJECT-23KJ2000, KAKENHI-PROJECT-23K28102
[Journal Article] gRESTシミュレーションによるVHH抗体の構造サンプリング2023
- Author(s)
  松永康佑、東田連
- Journal Title
  
  理論化学会会誌「フロンティア」
  
  Volume: 1月号(通巻17号) Pages: 13-22
- Data Source
  KAKENHI-PROJECT-20K21380
[Journal Article] Use of multistate Bennett acceptance ratio method for free-energy calculations from enhanced sampling and free-energy perturbation2022
- Author(s)
  Matsunaga Yasuhiro、Kamiya Motoshi、Oshima Hiraku、Jung Jaewoon、Ito Shingo、Sugita Yuji
- Journal Title
  
  Biophysical Reviews
  
  Volume: 14 Issue: 6 Pages: 1503-1512
- DOI
  10.1007/s12551-022-01030-9
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PLANNED-21H05282, KAKENHI-PROJECT-19H05645, KAKENHI-PROJECT-20K21380
[Journal Article] Construction of a Humanized Artificial VHH Library Reproducing Structural Features of Camelid VHHs for Therapeutics2022
- Author(s)
  T. Murakami, S. Kumachi, Y. Matsunaga, M. Sato, K. Wakabayashi-Nakao, H. Masaki, R. Yonehara, M. Motohashi, N. Nemoto, and M. Tsuchiya
- Journal Title
  
  Antibodies
  
  Volume: 11 Issue: 1 Pages: 10-10
- DOI
  10.3390/antib11010010
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-20K21380, KAKENHI-PROJECT-21H05025
[Journal Article] Coarse-Grained Modeling of Multiple Pathways in Conformational Transitions of Multi-Domain Proteins2021
- Author(s)
  A. Shinobu, C. Kobayashi, Y. Matsunaga, and Y. Sugita
- Journal Title
  
  Journal of Chemical Information and Modeling
  
  Volume: 61 Issue: 5 Pages: 2427-2443
- DOI
  10.1021/acs.jcim.1c00286
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-20K21380, KAKENHI-PROJECT-19H05645
[Journal Article] Enhanced Conformational Sampling of Nanobody CDR H3 Loop by Generalized Replica-Exchange with Solute Tempering2021
- Author(s)
  R. Higashida, Y. Matsunaga
- Journal Title
  
  Life
  
  Volume: 11 Issue: 12 Pages: 1428-1428
- DOI
  10.3390/life11121428
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-20K21380
[Journal Article] Rigid-body fitting to atomic force microscopy images for inferring probe shape and biomolecular structure2021
- Author(s)
  T. Niina, Y. Matsunaga, and S. Takada
- Journal Title
  
  PLoS Computational Biology
  
  Volume: 17 Issue: 7 Pages: e1009215-e1009215
- DOI
  10.1371/journal.pcbi.1009215
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-20K21380
[Journal Article] タンパク質の構造変化をどのように記述するか――生体分子におけるパスサンプリング手法の発展2021
- Author(s)
  松永康佑、藤崎弘士、森次圭
- Journal Title
  
  日本物理学会誌
  
  Volume: 76 Pages: 714-722
- NAID
  130008113824
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20K21380
[Journal Article] Structural and energetic analysis of metastable intermediate states in the E1P-E2P transition of Ca2+-ATPase2021
- Author(s)
  C. Kobayashi, Y. Matsunaga, J. Jung, Y. Sugita
- Journal Title
  
  Proceeding of the National Academy of Sciences of the United States of America
  
  Volume: 118 Issue: 40
- DOI
  10.1073/pnas.2105507118
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-20K21380, KAKENHI-PROJECT-19H05645
[Journal Article] Dimensionality of Collective Variables for Describing Conformational Changes of a Multi-Domain Protein2016
- Author(s)
  Y. Matsunaga, Yasuaki Komuro, Chigusa Kobayashi, Jaewoon Jung, Takaharu Mori, and Y. Sugita
- Journal Title
  
  The Journal of Physical Chemistry Letters
  
  Volume: 7 Issue: 8 Pages: 1446-1451
- DOI
  10.1021/acs.jpclett.6b00317
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PUBLICLY-26120533, KAKENHI-PLANNED-26119006
[Journal Article] 11.GENESIS: A hybrid-parallel and multi-scale molecular dynamics simulator with enhanced sampling algorithms for biomolecular and cellular simulations2015
- Author(s)
  Jaewoon Jung, Takaharu Mori, Chigusa Kobayashi, Yasuhiro Matsunaga, Takao Yoda, Michael Feig, Yuji Sugita
- Journal Title
  
  WIREs Comp. Mol. Sci.
  
  Volume: 5 Issue: 4 Pages: 310-323
- DOI
  10.1002/wcms.1220
- Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PLANNED-26119006, KAKENHI-PUBLICLY-26120533
[Journal Article] Extended phase-space methods for enhanced sampling in molecular simulations: a review2015
- Author(s)
  H. Fujisaki, K. Moritsugu, Y. Matsunaga, T. Morishita, and L. Maragliano
- Journal Title
  
  Frontiers in Bioengineering and Biotechnology
  
  Volume: 3
- DOI
  10.3389/fbioe.2015.00125
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-26120533
[Journal Article] 9.Sequential data assimilation for single-molecule FRET photon-counting data2015
- Author(s)
  Yasuhiro Matsunaga, Akinori Kidera, Yuji Sugita
- Journal Title
  
  J. Chem. Phys.
  
  Volume: 142 Issue: 21 Pages: 214115-214115
- DOI
  10.1063/1.4921983
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PLANNED-26119006, KAKENHI-PUBLICLY-26120533
[Journal Article] 5.Domain Motion Enhanced (DoME) Model for Efficient Conformational Sampling of Multidomain Proteins2015
- Author(s)
  Chigusa Kobayashi, Yasuhiro Matsunaga, Ryotaro Koike, Motonori Ota, Yuji Sugita
- Journal Title
  
  J. Phys. Chem. B
  
  Volume: 119 Issue: 46 Pages: 14584-14593
- DOI
  10.1021/acs.jpcb.5b07668
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PLANNED-26119006, KAKENHI-PUBLICLY-26120533
[Journal Article] ストリング法によるタンパク質構造変化の解析2014
- Author(s)
  松永康佑
- Journal Title
  
  分子シミュレーション研究会会誌アンサンブル
  
  Volume: 16 Pages: 29-35
- NAID
  130005087682
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-24770159
[Journal Article] ストリング法によるタンパク質構造変化解析2014
- Author(s)
  松永康佑
- Journal Title
  
  統計数理
  
  Volume: 62 Pages: 285-299
- NAID
  120006020808
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PUBLICLY-26120533
[Journal Article] ストリング法によるタンパク質構造変化の解析2014
- Author(s)
  松永康佑
- Journal Title
  
  分子シミュレーション研究会会誌アンサンブル
  
  Volume: 16 Pages: 29-35
- NAID
  130005087682
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-24770159
[Journal Article] Spatio-temporal Hierarchy in the Dynamics of a Minimalist Protein Model2013
- Author(s)
  Yasuhiro Matsunaga, Akinori Baba, Chun Biu Li, John Straub, Mikito Toda, Tamiki Komatsuzaki, R. Berry
- Journal Title
  
  The Journal of Chemical Physics
  
  Volume: 139 Issue: 21 Pages: 215101-215101
- DOI
  10.1063/1.4834415
- NAID
  120005385312
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PLANNED-23115007, KAKENHI-PROJECT-24540394, KAKENHI-PROJECT-24770159, KAKENHI-PROJECT-25287105, KAKENHI-PROJECT-25610105, KAKENHI-PROJECT-25650044
[Journal Article] Minimum Free Energy Path of Ligand-Induced Transition in Adenylate Kinase2012
- Author(s)
  Y. Matsunaga, H. Fujisaki, T. Terada, T. Furuta, K. Moritsugu, and A. Kidera
- Journal Title
  
  PLoS Comput. Biol
  
  Volume: 8 Issue: 6 Pages: 12-12
- DOI
  10.1371/journal.pcbi.1002555
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22540421, KAKENHI-PROJECT-23247027, KAKENHI-PROJECT-23540454, KAKENHI-PROJECT-23570198, KAKENHI-PROJECT-24770159
[Journal Article] PLoS One2012
- Author(s)
  Matsunaga, Y., Koike, R., Ota, M., Tame, J. R. H. & Kidera, A.
- Journal Title
  
  Influence of structural symmetry on protein dynamics.
  
  Volume: 7 Issue: 11 Pages: 11-11
- DOI
  10.1371/journal.pone.0050011
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370044, KAKENHI-PROJECT-23247027, KAKENHI-PROJECT-24770159, KAKENHI-PLANNED-21113007
[Presentation] End-to-end differentiable blind tip reconstruction for noisy atomic force microscopy images2023
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  第61回日本生物物理学会年会
- Invited
- Data Source
  KAKENHI-PROJECT-23K28102
[Presentation] End-to-end differentiable blind tip reconstruction for noisy atomic force microscopy images2023
- Author(s)
  松永康佑
- Organizer
  第61回日本生物物理学会年会
- Invited
- Data Source
  KAKENHI-PROJECT-23K18105
[Presentation] Integrative Modeling of Biomolecular Dynamics from Molecular Dynamics Simulations and Single-Molecule Experiments2023
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  Multi-scale Molecular Dynamics Simulation and Machine Learning of Biomolecular Systems
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-23K28102
[Presentation] Integrative Modeling of Biomolecular Dynamics from Molecular Dynamics Simulations and Single-Molecule Experiments2023
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  Multi-scale Molecular Dynamics Simulation and Machine Learning of Biomolecular Systems
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-23K18105
[Presentation] Integrative modeling of biomolecular dynamics from simulations and experiments2023
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  The 5th R-CCS international symposium
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] インシリコモデリングへ向けたVHH抗体の分子シミュレーション2023
- Author(s)
  松永康佑
- Organizer
  第2回日本抗体学会学術大会
- Invited
- Data Source
  KAKENHI-PROJECT-23K28102
[Presentation] Integrative modeling of biomolecular dynamics from simulations and experiments2023
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  The joint symposium of Kanto spin chemistry meeting 2022 and startup symposium “Strategic research center, incubation research group of biomolecular dynamics”
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] ウイルスカプシド構造のタイリングによる解析2023
- Author(s)
  松永康佑
- Organizer
  第4回生体分子シミュレーション・モデリング研究会
- Data Source
  KAKENHI-PROJECT-23K28102
[Presentation] Integrative modeling of biomolecular dynamics from molecular dynamics simulations and single-molecule experiments2023
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  The 6th International Conference on Molecular Simulation (ICMS2023)
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-23K18105
[Presentation] ウイルスカプシド構造のタイリングによる解析2023
- Author(s)
  松永康佑
- Organizer
  第4回生体分子シミュレーション・モデリング研究会
- Data Source
  KAKENHI-PROJECT-23K18105
[Presentation] インシリコモデリングへ向けたVHH抗体の分子シミュレーション2023
- Author(s)
  松永康佑
- Organizer
  第2回日本抗体学会学術大会
- Invited
- Data Source
  KAKENHI-PROJECT-23K18105
[Presentation] Integrative modeling of biomolecular dynamics from molecular dynamics simulations and single-molecule experiments2023
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  The 6th International Conference on Molecular Simulation (ICMS2023)
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-23K28102
[Presentation] 実験とシミュレーションを統合した生体分子構造ダイナミクスのモデリング2022
- Author(s)
  松永康佑
- Organizer
  第40回関東CAE懇話会
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] 機械学習を用いた実験データとシミュレーションデータの統合モデリング(データ同化)2022
- Author(s)
  松永康佑
- Organizer
  蛋白質データサイエンスセミナー
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] 生体分子構造ダイナミクスの統合モデリング2022
- Author(s)
  松永康佑
- Organizer
  第3回ピコバイオロジー研究会(
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] エンドツーエンドで微分可能なトラジェクトリ解析ツールの開発2022
- Author(s)
  松永康佑
- Organizer
  第2回生体分子シミュレーション・モデリング研究会
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] 微分可能なアプローチによる高速原子間力顕微鏡データの解析2022
- Author(s)
  松永康佑
- Organizer
  第30回情報計測オンラインセミナー
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] 実験とシミュレーションを統合した生体分子構造ダイナミクスのモデリング2022
- Author(s)
  松永康佑
- Organizer
  第19回新学術「高速分子動画」オンラインセミナー
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] 生体分子系の分子動力学シミュレーションデータの解析入門2022
- Author(s)
  松永康佑
- Organizer
  第4回スパコンコロキウム
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] Integrative Modeling of Protein Dynamics from High-Speed Atomic Force Microscopy and Molecular Dynamics Simulations2022
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  蛋白研セミナー Frontier of Dynamic Structural Biology
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] 実験とシミュレーションを統合したタンパク質ダイナミクスのモデリング2022
- Author(s)
  松永康佑
- Organizer
  第22回日本蛋白質科学会年会
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] 生体分子構造ダイナミクスの統合モデリング2021
- Author(s)
  松永康佑
- Organizer
  第4回ワークショップ「レア・イベント解析とデータ科学」
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] 生体分子構造ダイナミクスの統合モデリング2021
- Author(s)
  松永康佑
- Organizer
  統計物理と統計科学のセミナー
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] VHH抗体の構造と熱安定性のモデリング2021
- Author(s)
  松永康佑
- Organizer
  計算メディカルサイエンスワークショップ2021
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] Integrative modeling of protein dynamics from experimental data and molecular dynamics simulations2020
- Author(s)
  松永康佑
- Organizer
  第43会日本分子生物学会年会
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] Integrative modeling of protein dynamics from single-molecule experiments and molecular dynamics simulations2020
- Author(s)
  松永康佑
- Organizer
  第58回日本生物物理学会年会
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] 計測とシミュレーションを統合したタンパク質ダイナミクスのモデリング2020
- Author(s)
  松永康佑
- Organizer
  第93回日本生化学会大会
- Invited
- Data Source
  KAKENHI-PROJECT-20K21380
[Presentation] 1分子FRETデータと分子動力学シミュレーションによるタンパク質ダイナミクス解析2016
- Author(s)
  松永康佑
- Organizer
  第16回日本蛋白質科学会年会ワークショップ「生命分子計測のスパースモデリング：限られた計測データから生命分子の構造情報を引き出す」
- Place of Presentation
  福岡国際会議場・（福岡県・福岡市）
- Year and Date
  2016-06-07
- Invited
- Data Source
  KAKENHI-PUBLICLY-26120533
[Presentation] 1分子FRETデータと分子動力学シミュレーションによるタンパク質ダイナミクス解析2016
- Author(s)
  松永康佑、杉田有治
- Organizer
  第16回日本蛋白質科学会年会若手奨励賞シンポジウム
- Place of Presentation
  福岡国際会議場・（福岡県・福岡市）
- Year and Date
  2016-06-08
- Data Source
  KAKENHI-PUBLICLY-26120533
[Presentation] データ同化技術を用いた1分子FRET計測融合シミュレーションによるタンパク質動態の解明2014
- Author(s)
  松永康佑
- Organizer
  第1回「京」を中核とするHPCIシステム利用研究課題成果報告会
- Place of Presentation
  コクヨホール（東京都・品川区）
- Year and Date
  2014-10-31
- Data Source
  KAKENHI-PUBLICLY-26120533
[Presentation] Finding Conformational Transition Pathways in Biomolecules with the String Method and Sequential Data Assimilation2014
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  Rare Event Sampling and Related Topics I
- Place of Presentation
  統計数理研究所（東京都）
- Invited
- Data Source
  KAKENHI-PROJECT-24770159
[Presentation] Finding Conformational Transition Pathways in Biomolecules with the String Method and Sequential Data Assimilation2014
- Author(s)
  Y. Matsunaga
- Organizer
  Rare Event Sampling and Related Topics I
- Place of Presentation
  ISM, Tokyo, Japan
- Data Source
  KAKENHI-PROJECT-24770159
[Presentation] 生体分子シミュレーション研究のGPGPUによる加速2013
- Author(s)
  松永康佑
- Organizer
  2013年度理研シンポジウム「理研RICC新搭載GPUと科学へのアプリケーション」
- Place of Presentation
  理化学研究所・和光
- Year and Date
  2013-06-27
- Data Source
  KAKENHI-PROJECT-24770159
[Presentation] 最小自由エネルギー経路探索法による多剤排出トランスポーターの薬剤排出機構の解明2013
- Author(s)
  木寺詔紀, 寺田透, 藤崎弘士, 森次圭, 松永康佑, 池口満徳
- Organizer
  平成24年度「京」を中核とするHPCIシステム利用研究課題中間報告会
- Place of Presentation
  東京
- Data Source
  KAKENHI-PROJECT-24770159
[Presentation] Sequential data assimilation of single-molecule FRET photon-counting data by using molecular dynamics simulations2013
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  Workshop on Molecular Simulations of Biophysics and Biochemistry
- Place of Presentation
  理化学研究所・計算科学研究機構（神戸市）
- Invited
- Data Source
  KAKENHI-PROJECT-24770159
[Presentation] 生体分子シミュレーション研究のGPGPUによる加速2013
- Author(s)
  松永康佑
- Organizer
  2013年度理研シンポジウム「理研RICC新搭載GPUと科学へのアプリケーション」
- Place of Presentation
  理化学研究所（和光市）
- Invited
- Data Source
  KAKENHI-PROJECT-24770159
[Presentation] Sequential data assimilation of single-molecule FRET photon-counting data by using molecular dynamics simulations2013
- Author(s)
  Y. Matsunaga
- Organizer
  Workshop on Molecular Simulations of Biophysics and Biochemistry
- Place of Presentation
  RIKEN AICS, Kobe, Japan
- Year and Date
  2013-11-21
- Data Source
  KAKENHI-PROJECT-24770159
[Presentation] 有限温度ストリング法によるアデニル酸キナーゼの最小自由エネルギー経路探索2012
- Author(s)
  松永康佑
- Organizer
  化学反応経路探索のニューフロンティア２０１２
- Place of Presentation
  東京
- Invited
- Data Source
  KAKENHI-PROJECT-24770159
[Presentation] 有限温度ストリング法によるアデニル酸キナーゼの最小自由エネルギー経路探索2012
- Author(s)
  松永康佑
- Organizer
  シンポジウム「化学反応経路探索のニューフロンティア2012」
- Place of Presentation
  東京大学・山上会館
- Data Source
  KAKENHI-PROJECT-24770159
[Presentation] Sequential data assimilation of single-molecule FRET photon-counting data by using molecular dynamics simulations
- Author(s)
  Yasuhiro Matsunaga, and Yuji Sugita
- Organizer
  Telluride Workshop on Coarse-Grained Modeling of Structure and Dynamics of Biomacromolecules
- Place of Presentation
  テルライド（米国）
- Year and Date
  2014-08-04 – 2014-08-08
- Data Source
  KAKENHI-PUBLICLY-26120533
[Presentation] Molecular dynamics simulation studies using multi-copy based methods: string method and sequential data assimilation
- Author(s)
  Yasuhiro Matsunaga
- Organizer
  5th AICS International Symposium
- Place of Presentation
  理化学研究所・計算科学研究機構（兵庫県・神戸市）
- Year and Date
  2014-12-08 – 2014-12-09
- Invited
- Data Source
  KAKENHI-PUBLICLY-26120533
[Presentation] 1分子FRET光子計数データのモデリング
- Author(s)
  松永康佑
- Organizer
  新学術領域研究スパースモデリングの深化と高次元データ駆動科学の創成 2014年度公開シンポジウム
- Place of Presentation
  東京工業大学すずかけ台キャンパス（神奈川県・横浜市）
- Year and Date
  2014-12-15 – 2014-12-17
- Data Source
  KAKENHI-PUBLICLY-26120533

1. 舘知宏 (50586740)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
2. 堀山貴史 (60314530)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
3. YU Isseki

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
4. FUJISAKI Hiroshi

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
5. 杉田有治

# of Collaborated Projects: 0 results

# of Collaborated Products: 4 results
6. 鄭載運

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
7. TAME J.R.H.

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
8. 小松崎民樹

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
9. 李振風

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results

MATSUNAGA YASUHIRO 松永 康佑

Matsunaga Yasuhiro 松永 康佑

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Integration of Experiments and Biomolecular Modeling Through an End-to-End Differentiable ApproachPrincipal Investigator

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タイリング理論と分子科学の協働によるウイルス外殻構造の新たな設計原理の探究Principal Investigator

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Bottom-up design of virus capsids using tilingPrincipal Investigator

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パスサンプリングによる1分子FRET光子計数データのモデリングPrincipal Investigator

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Statistical analysis of conformational changes of proteinsPrincipal Investigator

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[Book] 実験医学増刊 Vol.38 No.20 機械学習を生命科学に使う！2020

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[Journal Article] Development of Hidden Markov Modeling of Molecular Orientations and Structures from High-Speed Atomic Force Microscopy Time-Series Images2023

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[Journal Article] End-to-end differentiable blind tip reconstruction for noisy atomic force microscopy images2023

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[Journal Article] Representation of Protein Dynamics Disentangled by Time-Structure-Based Prior2023

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[Journal Article] gRESTシミュレーションによるVHH抗体の構造サンプリング2023

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[Journal Article] Use of multistate Bennett acceptance ratio method for free-energy calculations from enhanced sampling and free-energy perturbation2022

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[Journal Article] Construction of a Humanized Artificial VHH Library Reproducing Structural Features of Camelid VHHs for Therapeutics2022

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[Journal Article] Coarse-Grained Modeling of Multiple Pathways in Conformational Transitions of Multi-Domain Proteins2021

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[Journal Article] Enhanced Conformational Sampling of Nanobody CDR H3 Loop by Generalized Replica-Exchange with Solute Tempering2021

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MATSUNAGA YASUHIRO 松永康佑

Matsunaga Yasuhiro 松永康佑