Coulomb replica-exchange method: Handling electrostatic attractive and repulsive forces for biomolecules. - Satoru G. Itoh; Hisashi Okumura (J. Comput. Chem., 2013)

Hamiltonian replica-permutation method and its applications to an alanine dipeptide and amyloid-β(29-42) peptides. - Satoru G. Itoh; Hisashi Okumura (J. Comput. Chem., 2013)

On-the-fly reconstruction of free-energy profiles using logarithmic mean-force dynamics. - Tetsuya Morishita; Satoru G. Itoh; Hisashi Okumura; Masuhiro Mikami (J. Comput. Chem., 2013)

Implementations of replica-permutation and replica sub-permutation methods into LAMMPS. - Masataka Yamauchi; Giovanni La Penna; Satoru G. Itoh; Hisashi Okumura (Comput. Phys. Commun., 2022)

Ingenuity in performing replica permutation: How to order the state labels for improving sampling efficiency. - Daiki Fukuhara; Masataka Yamauchi; Satoru G. Itoh; Hisashi Okumura (J. Comput. Chem., 2023)