ATLAS: A real-space finite-difference implementation of orbital-free density functional theory. - Wenhui Mi; Xuecheng Shao; Chuanxun Su; Yuanyuan Zhou; Shoutao Zhang; Quan Li; Hui Wang; Lijun Zhang 017; Maosheng Miao; Yanchao Wang 003; Yanming Ma (Comput. Phys. Commun., 2016)

Attention-based Convolutional Neural Networks for Protein-Protein Interaction Site Prediction. - Shuai Lu; Yuguang Li; Xiaofei Nan; Shoutao Zhang (BIBM, 2021)

A Sequence-Based Antibody Paratope Prediction Model Through Combing Local-Global Information and Partner Features. - Shuai Lu; Yuguang Li; Xiaofei Nan; Shoutao Zhang (ISBRA, 2021)

Leveraging Sequential and Spatial Neighbors Information by Using CNNs Linked With GCNs for Paratope Prediction. - Shuai Lu; Yuguang Li; Fei Wang 125; Xiaofei Nan; Shoutao Zhang (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

Protein-Protein Interaction Site Prediction Based on Attention Mechanism and Convolutional Neural Networks. - Yuguang Li; Shuai Lu; Qiang Ma; Xiaofei Nan; Shoutao Zhang (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

HSSPPI: hierarchical and spatial-sequential modeling for PPIs prediction. - Yuguang Li; Zhen Tian; Xiaofei Nan; Shoutao Zhang; Qinglei Zhou; Shuai Lu (Briefings Bioinform., 2025)