RGN: Residue-Based Graph Attention and Convolutional Network for Protein-Protein Interaction Site Prediction. - Shuang Wang; Wenqi Chen; Peifu Han; Xue Li 019; Tao Song 001 (J. Chem. Inf. Model., 2022)

MARPPI: boosting prediction of protein-protein interactions with multi-scale architecture residual network. - Xue Li 019; Peifu Han; Wenqi Chen; Changnan Gao; Shuang Wang; Tao Song 001; Muyuan Niu; Alfonso Rodríguez-Patón (Briefings Bioinform., 2023)

QuantumTox: Utilizing quantum chemistry with ensemble learning for molecular toxicity prediction. - Xun Wang 010; Lulu Wang; Shuang Wang; Yongqi Ren; Wenqi Chen; Xue Li 019; Peifu Han; Tao Song 001 (Comput. Biol. Medicine, 2023)

KGM4DTI: A Depression Knowledge Graph-Driven Multi-semantic Multi-view Computational Framework for Drug-Target Interaction Prediction. - Xu Tian; Peifu Han; Xue Li 019; Hongzhen Ding; Wei He; Fengrui Jing; Shuang Wang; Xun Wang 010; Tao Song 001 (BIBM, 2024)

MIPPIS: protein-protein interaction site prediction network with multi-information fusion. - Shuang Wang; Kaiyu Dong; Dingming Liang; Yunjing Zhang; Xue Li 019; Tao Song 001 (BMC Bioinform., 2024)

Multi-scale low-frequency enhanced spectral neural operator for reducing low-frequency error in partial differential equations solving. - Fengrui Jing; Chuchu Zhai; Peizhi Zhao; Xue Li 019; Peifu Han; Hongzhen Ding; Yunlong Dong; Long Hao; Xu Tian; Tao Song 001 (Eng. Appl. Artif. Intell., 2025)

TGF-M: Topology-augmented geometric features enhance molecular property prediction. - Wei He; Xu Tian; Xue Li 019; Peifu Han; Shuang Wang; Lin Liu; Tao Song 001 (PLoS Comput. Biol., 2025)

Predicting Mutation-Disease Associations Through Protein Interactions Via Deep Learning. - Xue Li 019; Ben Cao; Jianmin Wang 016; Xiangyu Meng 005; Shuang Wang; Yu Huang 004; Enrico Petretto; Tao Song 001 (IEEE J. Biomed. Health Informatics, 2025)