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IEEE Transactions on Neural Networks and Learning Systems|March 18, 2025
Protein Language Pragmatic Analysis and Progressive Transfer Learning for Profiling Peptide-Protein InteractionsShutao Chen, Ke Yan, Xuelong Li, et al.Proteins|September 26, 2023
PDB-BRE: A ligand-protein interaction binding residue extractor based on Protein Data BankShutao Chen, Ke Yan, Bin LiuBioinformatics (Oxford, England)|September 4, 2025
Accurate prediction of toxicity peptide and its function using multi-view tensor learning and latent semantic learning frameworkKe Yan, Shutao Chen, Bin Liu, et al.Plos Computational Biology|January 2, 2026
DSCA-HLAII: A dual-stream cross-attention model for predicting peptide-HLA class II interaction and presentationKe Yan, Hongjun Yu, Shutao Chen, et al.BMC Biology|December 30, 2025
TPpred-CMvL: prediction of multi-functional therapeutic peptide using contrast multi-view learningKe Yan, Kangrui Xiang, Zixu Chen, et al.Plos Computational Biology|March 24, 2026
PepLM-GNN: A graph neural network framework leveraging pre-trained language models for peptide-protein binding predictionKe Yan, Meijing Li, Shutao Chen, et al.Journal of Chemical Information and Modeling|March 17, 2026
HGT-PepPI: A Heterogeneous Graph-Based Framework Leveraging Pragmatic Analysis for Peptide-Protein Interaction PredictionKe Yan, Tianyi Liu, Xinxin Zhan, et al.Bioinformatics (Oxford, England)|June 27, 2025
FusionEncoder: identification of intrinsically disordered regions based on multi-feature fusionSicen Liu, Shutao Chen, Tao Bai, et al.Briefings in Bioinformatics|July 21, 2020
FoldRec-C2C: protein fold recognition by combining cluster-to-cluster model and protein similarity networkJiangyi Shao, Ke Yan, Bin LiuGenome Research|April 15, 2026
Balancing gene ontology annotation specificity in protein function prediction based on the protein sequence large graphJiangyi Shao, Shutao Chen, Ziwen Wang, et al.Pageof 1,122