1. Z. Yu, Y. Su, Y. Lu, F. Wang, S. Zhang, Y. Chang, K. Wong*, X. Li*, Topological Identification and Interpretation for Single-cell Gene Regulation Elucidation across Multiple Platforms using scMGCA, Nature Communications, 2023. (中科院一区,IF=18.9)
2. X. Zhang†, Z. Yu†, G. Hao, Q.Yao, X. Chen, L. Liu, Y. Hu, K. Wong, X. Li* , “Robust Characterization and Interpretation of Rare Pathogenic Cell Populations from Spatial Omics using GARDEN,” Nature Communications, 2026. (中科院一区,IF=18.9)
3. Z. Yu, Y. Yang, X. Chen, K. Wong, Z. Zhang, Y. Zhao*, X. Li*, Accurate Spatial Heterogeneity Dissection and Gene Regulation Interpretation for Spatial Transcriptomics using Dual Graph Contrastive Learning, Advanced Science, 2024. (中科院一区,IF=15.6)
4. Z. Yu, Y. Lu, Y. Wang, F. Tang, K. Wong, X. Li*, ZINB-based Graph Embedding Autoencoder for Single-cell RNA-seq Interpretations, Thirty-Sixth AAAI Conference on Artificial Intelligence (AAAI 2022), 2021. (CCF-A, Oral)
5. Z. Yu, C. Bian, G. Liu, S. Zhang, K. Wong, X. Li*, Elucidating Transcriptomic Profiles from Single-cell RNA-seq Data using Nature-Inspired Compressed Sensing, Briefings in Bioinformatics, 2021.(中科院一区,IF=8.1)
6. G. Hao, Y. Fan, Z. Yu, Y. Su, H. Zhu, F. Wang, X. Chen, Y. Yang, G. Wang, K. Wong, X. Li*, Topological Identification and Interpretation for Single-cell Epigenetic Regulation Elucidation in Multi-tasks using scAGDE, Nature Communications, 2025. (中科院一区,IF=18.9)
7. Q. Qi, Y. Su, Y. Fan, Z. Yu, Y. Huang, K. Wong, X. Li*, scSuperAnnotator: a platform for benchmarking comparison and visualizing automated cellular annotation methods for scRNA-seq data, Nucleic Acids Research, 2025. (中科院一区,IF=17.8)
8. Y. Su, Z. Yu, Y. Yang, X. Li*, Distribution-agnostic Deep Learning Enables Accurate Single‐Cell Data Recovery and Transcriptional Regulation Interpretation, Advanced Science, 2024. (中科院一区,IF=18.9)
9. Y. Zhang, Z. Yu, K. Wong, X. Li*, Unraveling Spatial Domain Characterization in Spatially Resolved Transcriptomics with Robust Graph Contrastive Clustering, Bioinformatics, 2024. (CCF-A,IF=7.5)
10. Y. Cheng, Y. Su, Z. Yu, Y. Liang, K. Wong, X. Li*, Unsupervised Deep Embedded Fusion Representation of Single-cell Transcriptomics, Thirty-Seventh AAAI Conference on Artificial Intelligence (AAAI 2023), 2022. (CCF-A, Oral)