Prediction of antigenic epitopes on protein surfaces by consensus scoring. - Shide Liang; Dandan Zheng 003; Chi Zhang 013; Martin Zacharias (BMC Bioinform., 2009)

EPSVR and EPMeta: prediction of antigenic epitopes using support vector regression and multiple server results. - Shide Liang; Dandan Zheng 003; Daron M. Standley; Bo Yao; Martin Zacharias; Chi Zhang 013 (BMC Bioinform., 2010)

Fast and accurate prediction of protein side-chain conformations. - Shide Liang; Dandan Zheng 003; Chi Zhang 013; Daron M. Standley (Bioinform., 2011)

Protein side chain modeling with orientation-dependent atomic force fields derived by series expansions. - Shide Liang; Yaoqi Zhou; Nick V. Grishin; Daron M. Standley (J. Comput. Chem., 2011)

A novel function prediction approach using protein overlap networks. - Shide Liang; Dandan Zheng 003; Daron M. Standley; Huarong Guo; Chi Zhang 013 (BMC Syst. Biol., 2013)

Kotai Antibody Builder: automated high-resolution structural modeling of antibodies. - Kazuo Yamashita; Kazuyoshi Ikeda; Karlou Mar Amada; Shide Liang; Yuko Tsuchiya; Haruki Nakamura; Hiroki Shirai; Daron M. Standley (Bioinform., 2014)

LEAP: Highly accurate prediction of protein loop conformations by integrating coarse-grained sampling and optimized energy scores with all-atom refinement of backbone and side chains. - Shide Liang; Chi Zhang 013; Yaoqi Zhou (J. Comput. Chem., 2014)

De novo protein design by an energy function based on series expansion in distance and orientation dependence. - Shide Liang; Zhixiu Li; Jian Zhan; Yaoqi Zhou (Bioinform., 2021)

Ab Initio Prediction of 3-D Conformations for Protein Long Loops with High Accuracy and Applications to Antibody CDRH3 Modeling. - Shide Liang; Chi Zhang 013; Mingfu Zhu (J. Chem. Inf. Model., 2023)