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Takenobu Nakamura
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Hierarchical structures of amorphous solids characterized by persistent homology
Y Hiraoka, T Nakamura, A Hirata, EG Escolar, K Matsue, Y Nishiura
Proceedings of the National Academy of Sciences 113 (26), 7035-7040, 2016
3952016
Persistent homology and many-body atomic structure for medium-range order in the glass
T Nakamura, Y Hiraoka, A Hirata, EG Escolar, Y Nishiura
Nanotechnology 26 (30), 304001, 2015
1432015
Structure and properties of densified silica glass: characterizing the order within disorder
Y Onodera, S Kohara, PS Salmon, A Hirata, N Nishiyama, S Kitani, ...
NPG Asia Materials 12 (1), 85, 2020
752020
Experimental test of a new equality: Measuring heat dissipation in an optically driven colloidal system
S Toyabe, HR Jiang, T Nakamura, Y Murayama, M Sano
Physical Review E—Statistical, Nonlinear, and Soft Matter Physics 75 (1 …, 2007
622007
Effect of the cation on the stability of cation–glyme complexes and their interactions with the [TFSA]− anion
S Tsuzuki, T Mandai, S Suzuki, W Shinoda, T Nakamura, T Morishita, ...
Physical Chemistry Chemical Physics 19 (28), 18262-18272, 2017
572017
Persistent homology analysis for materials research and persistent homology software: HomCloud
I Obayashi, T Nakamura, Y Hiraoka
journal of the physical society of japan 91 (9), 091013, 2022
552022
Free energy analysis of vesicle-to-bicelle transformation
W Shinoda, T Nakamura, SO Nielsen
Soft Matter 7 (19), 9012-9020, 2011
482011
Novel numerical method for calculating the pressure tensor in spherical coordinates for molecular systems
T Nakamura, W Shinoda, T Ikeshoji
The Journal of chemical physics 135 (9), 2011
392011
Precise calculation of the local pressure tensor in Cartesian and spherical coordinates in LAMMPS
T Nakamura, S Kawamoto, W Shinoda
Computer Physics Communications 190, 120-128, 2015
362015
A guiding potential method for evaluating the bending rigidity of tensionless lipid membranes from molecular simulation
S Kawamoto, T Nakamura, SO Nielsen, W Shinoda
The Journal of chemical physics 139 (3), 2013
292013
Derivation of the nonlinear fluctuating hydrodynamic equation from the underdamped Langevin equation
T Nakamura, A Yoshimori
Journal of Physics A: Mathematical and Theoretical 42 (6), 065001, 2009
212009
Persistence homology of entangled rings
F Landuzzi, T Nakamura, D Michieletto, T Sakaue
Physical Review Research 2 (3), 033529, 2020
182020
Method of evaluating curvature-dependent elastic parameters for small unilamellar vesicles using molecular dynamics trajectory
T Nakamura, W Shinoda
The Journal of Chemical Physics 138 (12), 2013
182013
Fluctuation-response relation of many Brownian particles under nonequilibrium conditions
T Nakamura, S Sasa
Physical Review E—Statistical, Nonlinear, and Soft Matter Physics 77 (2 …, 2008
142008
Isokinetic approach in logarithmic mean-force dynamics for on-the-fly free energy reconstruction
T Morishita, T Nakamura, W Shinoda, AM Ito
Chemical Physics Letters 706, 633-640, 2018
92018
Effects of anion on liquid structures of ionic liquids at graphene electrode interface analyzed by molecular dynamics simulations
S Tsuzuki, T Nakamura, T Morishita, W Shinoda, S Seki, Y Umebayashi, ...
Batteries & Supercaps 3 (7), 658-667, 2020
72020
Microscopic description of yielding in glass based on persistent homology
T Shirai, T Nakamura
journal of the physical society of japan 88 (7), 074801, 2019
72019
Characterizing reaction route map of realistic molecular reactions based on weight rank clique filtration of persistent homology
B Murayama, M Kobayashi, M Aoki, S Ishibashi, T Saito, T Nakamura, ...
Journal of Chemical Theory and Computation 19 (15), 5007-5023, 2023
62023
Systematic derivation of coarse-grained fluctuating hydrodynamic equations for many Brownian particles under nonequilibrium conditions
T Nakamura, S Sasa
Physical Review E—Statistical, Nonlinear, and Soft Matter Physics 74 (3 …, 2006
52006
Cooperative Reaction of Hydrogen-Networked Water Molecules at the SiC–H2O2 Solution Interface: Microscopic Insights from Ab Initio Molecular Dynamics
T Morishita, M Kayanuma, T Nakamura, T Kato
The Journal of Physical Chemistry C 126 (30), 12441-12449, 2022
42022
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