Glycan immunogenicity prediction based on Graph neural network. - Yu Wang 225; Hui Wang; Meijie Hou; Yaojun Wang; Dongbo Bu; Chunming Zhang; Chuncui Huang; Shiwei Sun (BIBM, 2021)

PepLand: a large-scale pre-trained peptide representation model for a comprehensive landscape of both canonical and non-canonical amino acids. - Ruochi Zhang; Haoran Wu; Yuting Xiu; Kewei Li; Ningning Chen; Yu Wang 225; Yan Wang 028; Xin Gao 001; Fengfeng Zhou (CoRR, 2023)

AB-Gen: Antibody Library Design with Generative Pre-Trained Transformer and Deep Reinforcement Learning. - Xiaopeng Xu; Tiantian Xu; Juexiao Zhou; Xingyu Liao; Ruochi Zhang; Yu Wang 225; Lu Zhang; Xin Gao 001 (Genom. Proteom. Bioinform., 2023)

DMSS: An Attention-Based Deep Learning Model for High-Quality Mass Spectrometry Prediction. - Yihui Ren 004; Yu Wang 225; Wenkai Han; Yikang Huang; Xiaoyang Hou; Chunming Zhang; Dongbo Bu; Xin Gao 001; Shiwei Sun (Big Data Min. Anal., 2024)

HELM-GPT: de novo macrocyclic peptide design using generative pre-trained transformer. - Xiaopeng Xu; Chencheng Xu; Wenjia He; Lesong Wei; Haoyang Li; Juexiao Zhou; Ruochi Zhang; Yu Wang 225; Yuanpeng Xiong; Xin Gao 001 (Bioinform., 2024)

PractiCPP: a deep learning approach tailored for extremely imbalanced datasets in cell-penetrating peptide prediction. - Kexin Shi; Yuanpeng Xiong; Yu Wang 225; Yifan Deng; Wenjia Wang; Bingyi Jing; Xin Gao 001 (Bioinform., 2024)

PepLand: a large-scale pre-trained peptide representation model for a comprehensive landscape of both canonical and non-canonical amino acids. - Ruochi Zhang; Haoran Wu; Chang Liu 082; Qian Yang; Yuting Xiu; Kewei Li; Ningning Chen; Yu Wang 225; Yan Wang 028; Xin Gao 001; Fengfeng Zhou (Briefings Bioinform., 2025)

DeepSelective: Feature Gating and Representation Matching for Interpretable Clinical Prediction. - Ruochi Zhang; Qian Yang; Xiaoyang Wang; Haoran Wu; Qiong Zhou; Yu Wang 225; Kewei Li; Yueying Wang; Yusi Fan; Jiale Zhang; Lan Huang 002; Chang Liu 082; et al. (CoRR, 2025)