Shun Sakuraba

13 papers Journal 13
YearRankTypeTitle / Venue / Authors
2025 J jnl
Mechanistic Insights into HP1α CSD Oligomerization and the Role of
J. Chem. Inf. Model.
Amarjeet Kumar, Shun Sakuraba, Nitika Gaurav, Karthik Selvam, Tatiana G. Kutateladze, Hidetoshi Kono
2022 J jnl
Extended ensemble simulations of a SARS-CoV-2 nsp1-5'-UTR complex.
PLoS Comput. Biol.
Shun Sakuraba, Qilin Xie, Kota Kasahara, Junichi Iwakiri, Hidetoshi Kono
2020 J jnl
Large-Scale Parallel Implementation of Hartree-Fock Exchange Energy on Real-Space Grids Using 3D-Parallel Fast Fourier Transform.
J. Chem. Inf. Model.
Hideaki Takahashi, Shun Sakuraba, Akihiro Morita
2019 J jnl
Correction: Free energy profiles for unwrapping the outer superhelical turn of nucleosomal DNA.
PLoS Comput. Biol.
Hidetoshi Kono, Shun Sakuraba, Hisashi Ishida
2019 J jnl
Estimating Energy Parameters for RNA Secondary Structure Predictions Using Both Experimental and Computational Data.
IEEE ACM Trans. Comput. Biol. Bioinform.
Shimpei Nishida, Shun Sakuraba, Kiyoshi Asai, Michiaki Hamada
2018 J jnl
Capturing alternative secondary structures of RNA by decomposition of base-pairing probabilities.
BMC Bioinform.
Taichi Hagio, Shun Sakuraba, Junichi Iwakiri, Ryota Mori, Kiyoshi Asai
2018 J jnl
Free energy profiles for unwrapping the outer superhelical turn of nucleosomal DNA.
PLoS Comput. Biol.
Hidetoshi Kono, Shun Sakuraba, Hisashi Ishida
2018 J jnl
Performance evaluation of the zero-multipole summation method in modern molecular dynamics software.
J. Comput. Chem.
Shun Sakuraba, Ikuo Fukuda
2016 J jnl
H3 Histone Tail Conformation within the Nucleosome and the Impact of K14 Acetylation Studied Using Enhanced Sampling Simulation.
PLoS Comput. Biol.
Jinzen Ikebe, Shun Sakuraba, Hidetoshi Kono
2014 J jnl
Adaptive lambda square dynamics simulation: An efficient conformational sampling method for biomolecules.
J. Comput. Chem.
Jinzen Ikebe, Shun Sakuraba, Hidetoshi Kono
2014 J jnl
Ermod: Fast and versatile computation software for solvation free energy with approximate theory of solutions.
J. Comput. Chem.
Shun Sakuraba, Nobuyuki Matubayasi
2014 J jnl
Molecular Binding Sites Are Located Near the Interface of Intrinsic Dynamics Domains (IDDs).
J. Chem. Inf. Model.
Hongchun Li, Shun Sakuraba, Aravind Chandrasekaran, Lee-Wei Yang
2009 J jnl
Multiple Markov transition matrix method: Obtaining the stationary probability distribution from multiple simulations.
J. Comput. Chem.
Shun Sakuraba, Akio Kitao