Yutaka Maruyama, Ryo Igarashi, Yoshitaka Ushiku, Ayori Mitsutake. Analysis of Protein Folding Simulation with Moving Root Mean Square Deviation. J. Chem. Inf. Model. 2023. 63. 5. 1529-1541
Hiroshi Fujisaki, Hiromichi Suetani, Luca Maragliano, Ayori Mitsutake. Non-Markov-Type Analysis and Diffusion Map Analysis for Molecular Dynamics Trajectory of Chignolin at a High Temperature. Life. 2022
Norio Yoshida, Yutaka Maruyama, Ayori Mitsutake, Akiyoshi Kuroda, Ryo Fujiki, Kodai Kanemaru, Daisuke Okamoto, Alexander E. Kobryn, Sergey Gusarov, Haruyuki Nakano. Computational Analysis of the SARS-CoV-2 RBD-ACE2-Binding Process Based on MD and the 3D-RISM Theory. Journal of Chemical Information and Modeling. 2022. 62. 11. 2889-2898
Yutaka Maruyama, Ayori Mitsutake. Structural Stability Analysis of Proteins Using End-to-End Distance: A 3D-RISM Approach. J. 2022. 5. 1. 114-125
Shun Yokoi, Ayori Mitsutake. Molecular Dynamics Simulations for the Determination of the Characteristic Structural Differences between Inactive and Active States of Wild Type and Mutants of the Orexin2 Receptor. The journal of physical chemistry. B. 2021. 125. 17. 4286-4298
Fujisaki Hiroshi, Suetani Hiromichi, Mitsutake Ayori. How can we extract reaction coordinates from molecular dynamics simulations of biomolecules?. Meeting Abstracts of the Physical Society of Japan. 2017. 72. 0. 3237-3237
Fujisaki Hiroshi, Mitsutake Ayori. 19pBW-11 Rate calculations for conformational change of biomolecules using the milestoning method. Meeting Abstracts of the Physical Society of Japan. 2016. 71. 0. 3181-3181
Kaneko Toshihiro, Bai Jaeil, Yasuoka Kenji, Mitsutake Ayori, Zeng Xiao Cheng. 27pAB-11 Phase Transition of Water Confined in Slit Pores. Meeting abstracts of the Physical Society of Japan. 2014. 69. 1. 397-397
Mitsutake Ayori, Koizumi Yuta, Nagai Toshiki, Takano Hiroshi. 30pAA-8 Relaxation mode analysis for small protein simulations. Meeting abstracts of the Physical Society of Japan. 2014. 69. 1. 437-437
