A Bayes-inspired theory for optimally building an efficient coarse-grained folding force field. - Travis Hurst; Dong Zhang 020; Yuanzhe Zhou; Shi-Jie Chen (Commun. Inf. Syst., 2021)

Vfold-Pipeline: a web server for RNA 3D structure prediction from sequences. - Jun Li; Sicheng Zhang; Dong Zhang 020; Shi-Jie Chen (Bioinform., 2022)

IsRNAcirc: 3D structure prediction of circular RNAs based on coarse-grained molecular dynamics simulation. - Haolin Jiang; Yulian Xu; Yunguang Tong; Dong Zhang 020; Ruhong Zhou (PLoS Comput. Biol., 2024)

Integrating Physics-Based Simulations with Data-Driven Deep Learning Represents a Robust Strategy for Developing Inhibitors Targeting the Main Protease. - Yanqing Yang; Yangwei Jiang; Dong Zhang 020; Leili Zhang; Ruhong Zhou (J. Chem. Inf. Model., 2025)