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Interdisciplinary Sciences, Computational Life Sciences|June 15, 2026
Deep3D-DTA: A Tri-Modal Deep Learning Framework for Binding Affinity Prediction Leveraging 3D Structural Representations of Drugs and TargetsHan Zhou, Xiumin Shi, Lu WangThe European Journal of Neuroscience|March 5, 2026
MuloAD: A Multiomics Integration Model Utilizing Graph Convolutional Networks for Alzheimer's Disease Diagnosis and Biomarker IdentificationHan Zhou, Yixuan Zhu, Xiumin Shi, et al.Molecular Diversity|November 20, 2025
DeepMCL-DTI: predicting drug-target interactions using multi-channel deep learning with attention mechanismHan Zhou, Yijie Guo, Xiumin Shi, et al.Journal of Chemical Information and Modeling|August 5, 2024
scSwinFormer: A Transformer-Based Cell-Type Annotation Method for scRNA-Seq Data Using Smooth Gene Embedding and Global FeaturesHengyu Qin, Xiumin Shi, Han ZhouJournal of Computer-Aided Molecular Design|June 25, 2026
Prot-ΔΔG: Prediction of protein-protein binding affinity changes upon mutations with pre-training strategiesHan Zhou, Yuxiang Wang, Xiumin Shi, et al.Proteins|May 15, 2025
3D-ΔΔG: A Dual-Channel Prediction Model for Protein-Protein Binding Affinity Changes Following Mutation Based on Protein 3D StructuresYuxiang Wang, Yibo Zhu, Xiumin Shi, et al.Molecular Informatics|February 15, 2026
DeepMoDRP: A Multi-Omics-Based Deep Learning Framework for Drug Response Prediction in Brain CancerYuxuan Li, Xiumin Shi, Lu Wang, et al.Interdisciplinary Sciences, Computational Life Sciences|October 14, 2025
TrambaHLApan: A Transformer and Mamba-based Neoantigen Prediction Method Considering both Antigen Presentation and ImmunogenicityYibo Zhu, Xiumin Shi, Lu Wang, et al.Journal of Integrative Bioinformatics|September 6, 2024
MCMVDRP: a multi-channel multi-view deep learning framework for cancer drug response predictionXiangyu Li, Xiumin Shi, Yuxuan Li, et al.Journal of Chemical Theory and Computation|October 30, 2025
AbEgDiffuser: Antibody Sequence-Structure Codesign with Equivariant Graph Neural Networks and Diffusion ModelsYibo Zhu, Xiumin Shi, Jingjuan Zhang, et al.Pageof 972