Chigusa Kobayashi

Publication Activity (10 Years)

Years Active: 2016-2023
Publications (10 Years): 8

Top Topics

Parallel Implementation

Protein Folding

Molecular Dynamics

Top Venues

J. Comput. Chem.

Comput. Phys. Commun.

J. Chem. Inf. Model.

PLoS Comput. Biol.

Publications

Jaewoon Jung, Chigusa Kobayashi, Yuji Sugita
Acceleration of generalized replica exchange with solute tempering simulations of large biological systems on massively parallel supercomputer. J. Comput. Chem. 44 (20) (2023)
Cheng Tan, Jaewoon Jung, Chigusa Kobayashi, Diego Ugarte La Torre, Shoji Takada, Yuji Sugita
Implementation of residue-level coarse-grained models in GENESIS for large-scale molecular dynamics simulations. PLoS Comput. Biol. 18 (4) (2022)
Jaewoon Jung, Chigusa Kobayashi, Kento Kasahara, Cheng Tan, Akiyoshi Kuroda, Kazuo Minami, Shigeru Ishiduki, Tatsuo Nishiki, Hikaru Inoue, Yutaka Ishikawa, Michael Feig, Yuji Sugita
New parallel computing algorithm of molecular dynamics for extremely huge scale biological systems. J. Comput. Chem. 42 (4) (2021)
Ai Shinobu, Chigusa Kobayashi, Yasuhiro Matsunaga, Yuji Sugita
Coarse-Grained Modeling of Multiple Pathways in Conformational Transitions of Multi-Domain Proteins. J. Chem. Inf. Model. 61 (5) (2021)
Jaewoon Jung, Wataru Nishima, Marcus Daniels, Gavin Bascom, Chigusa Kobayashi, Adetokunbo Adedoyin, Michael E. Wall, Anna Lappala, Dominic Phillips, William Fischer, Chang-Shung Tung, Tamar Schlick, Yuji Sugita, Karissa Y. Sanbonmatsu
Scaling molecular dynamics beyond 100, 000 processor cores for large-scale biophysical simulations. J. Comput. Chem. 40 (21) (2019)
Chigusa Kobayashi, Jaewoon Jung, Yasuhiro Matsunaga, Takaharu Mori, Tadashi Ando, Koichi Tamura, Motoshi Kamiya, Yuji Sugita
GENESIS 1.1: A hybrid-parallel molecular dynamics simulator with enhanced sampling algorithms on multiple computational platforms. J. Comput. Chem. 38 (25) (2017)
Osamu Miyashita, Chigusa Kobayashi, Takaharu Mori, Yuji Sugita, Florence Tama
Flexible fitting to cryo-EM density map using ensemble molecular dynamics simulations. J. Comput. Chem. 38 (16) (2017)
Jaewoon Jung, Chigusa Kobayashi, Toshiyuki Imamura, Yuji Sugita
Parallel implementation of 3D FFT with volumetric decomposition schemes for efficient molecular dynamics simulations. Comput. Phys. Commun. 200 (2016)