Molecular Dynamics Simulation of Prion Protein by Large Scale Cluster Computing. - Masakazu Sekijima; Chie Motono; Satoshi Yamasaki; Kiyotoshi Kaneko; Yutaka Akiyama (ISHPC, 2003)

SAHG, a comprehensive database of predicted structures of all human proteins. - Chie Motono; Junichi Nakata; Ryotaro Koike; Kana Shimizu; Matsuyuki Shirota; Takayuki Amemiya; Kentaro Tomii; Nozomi Nagano; Naofumi Sakaya; Kiyotaka Misoo; Miwa Sato; Akinori Kidera; et al. (Nucleic Acids Res., 2011)

MDContactCom: a tool to identify differences of protein molecular dynamics from two MD simulation trajectories in terms of interresidue contacts. - Chie Motono; Shunsuke Yanagida; Miwa Sato; Takatsugu Hirokawa (Bioinform., 2021)

Phosprof: pathway analysis database of drug response based on phosphorylation activity measurements. - Harumi Kagiwada; Chie Motono; Katsuhisa Horimoto; Kazuhiko Fukui (Database J. Biol. Databases Curation, 2022)

CrypToth: Cryptic Pocket Detection through Mixed-Solvent Molecular Dynamics Simulations-Based Topological Data Analysis. - Jun Koseki; Chie Motono; Keisuke Yanagisawa; Genki Kudo; Ryunosuke Yoshino; Takatsugu Hirokawa; Kenichiro Imai (J. Chem. Inf. Model., 2025)