CVQVAE: A representation learning based method for multi-omics single cell data integration. - Tianyu Liu 005; Grant Greenberg; Ilan Shomorony (MLCB, 2022)

ResPAN: a powerful batch correction model for scRNA-seq data through residual adversarial networks. - Yuge Wang; Tianyu Liu 005; Hongyu Zhao 003 (Bioinform., 2022)

MuSe-GNN: Learning Unified Gene Representation From Multimodal Biological Graph Data. - Tianyu Liu 005; Yuge Wang; Rex Ying; Hongyu Zhao 003 (NeurIPS, 2023)

CosGeneGate selects multi-functional and credible biomarkers for single-cell analysis. - Tianyu Liu 005; Wenxin Long; Zhiyuan Cao; Yuge Wang; Chuan Hua He; Le Zhang; Stephen M. Strittmatter; Hongyu Zhao 003 (Briefings Bioinform., 2024)

Scalable Generation of Spatial Transcriptomics from Histology Images via Whole-Slide Flow Matching. - Tinglin Huang; Tianyu Liu 005; Mehrtash Babadi; Wengong Jin; Rex Ying (CoRR, 2025)