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Plos Computational Biology|March 6, 2018
Free energy profiles for unwrapping the outer superhelical turn of nucleosomal DNAHidetoshi Kono, Shun Sakuraba, Hisashi IshidaThe Journal of Chemical Physics|November 16, 2010
Detecting coupled collective motions in protein by independent subspace analysisShun Sakuraba, Yasumasa Joti, Akio KitaoJournal of Computational Chemistry|October 30, 2013
Adaptive lambda square dynamics simulation: an efficient conformational sampling method for biomoleculesJinzen Ikebe, Shun Sakuraba, Hidetoshi KonoJournal of Chemical Information and Modeling|February 25, 2020
Large-Scale Parallel Implementation of Hartree-Fock Exchange Energy on Real-Space Grids Using 3D-Parallel Fast Fourier TransformHideaki Takahashi, Shun Sakuraba, Akihiro MoritaThe Journal of Physical Chemistry Letters|January 2, 2016
Predicting RNA Duplex Dimerization Free-Energy Changes upon Mutations Using Molecular Dynamics SimulationsShun Sakuraba, Kiyoshi Asai, Tomoshi KamedaPlos Computational Biology|October 10, 2019
Correction: Free energy profiles for unwrapping the outer superhelical turn of nucleosomal DNAHidetoshi Kono, Shun Sakuraba, Hisashi IshidaPlos Computational Biology|March 12, 2016
H3 Histone Tail Conformation within the Nucleosome and the Impact of K14 Acetylation Studied Using Enhanced Sampling SimulationJinzen Ikebe, Shun Sakuraba, Hidetoshi KonoBiophysics and Physicobiology|January 28, 2020
Free energy profile for unwrapping outer superhelical turn of CENP-A nucleosomeHidetoshi Kono, Shun Sakuraba, Hisashi IshidaThe Journal of Chemical Physics|May 24, 2014
The zero-multipole summation method for estimating electrostatic interactions in molecular dynamics: analysis of the accuracy and application to liquid systemsIkuo Fukuda, Narutoshi Kamiya, Haruki NakamuraThe Journal of Chemical Physics|May 3, 2011
Molecular dynamics scheme for precise estimation of electrostatic interaction via zero-dipole summation principleIkuo Fukuda, Yasushige Yonezawa, Haruki NakamuraPageof 27