Wu, Lirong

42 publications

ICLR 2025 A Simple yet Effective $\Delta\Delta G$ Predictor Is an Unsupervised Antibody Optimizer and Explainer Lirong Wu, Yunfan Liu, Haitao Lin, Yufei Huang, Guojiang Zhao, Zhifeng Gao, Stan Z. Li

ICLR 2025 CBGBench: Fill in the Blank of Protein-Molecule Complex Binding Graph Haitao Lin, Guojiang Zhao, Odin Zhang, Yufei Huang, Lirong Wu, Cheng Tan, Zicheng Liu, Zhifeng Gao, Stan Z. Li

CVPR 2025 DaCapo: Score Distillation as Stacked Bridge for Fast and High-Quality 3D Editing Yufei Huang, Bangyan Liao, Yuqi Hu, Haitao Lin, Lirong Wu, Siyuan Li, Cheng Tan, Zicheng Liu, Yunfan Liu, Zelin Zang, Chang Yu, Zhen Lei

ICLR 2025 EVA: Geometric Inverse Design for Fast Protein Motif-Scaffolding with Coupled Flow Yufei Huang, Yunshu Liu, Lirong Wu, Haitao Lin, Cheng Tan, Odin Zhang, Zhangyang Gao, Siyuan Li, Zicheng Liu, Yunfan Liu, Tailin Wu, Stan Z. Li

AAAI 2025 FoldToken: Learning Protein Language via Vector Quantization and Beyond Zhangyang Gao, Cheng Tan, Jue Wang, Yufei Huang, Lirong Wu, Stan Z. Li

ICLR 2025 MeToken: Uniform Micro-Environment Token Boosts Post-Translational Modification Prediction Cheng Tan, Zhenxiao Cao, Zhangyang Gao, Lirong Wu, Siyuan Li, Yufei Huang, Jun Xia, Bozhen Hu, Stan Z. Li

AAAI 2025 Relation-Aware Equivariant Graph Networks for Epitope-Unknown Antibody Design and Specificity Optimization Lirong Wu, Haitao Lin, Yufei Huang, Zhangyang Gao, Cheng Tan, Yunfan Liu, Tailin Wu, Stan Z. Li

AAAI 2025 dyAb: Flow Matching for Flexible Antibody Design with AlphaFold-Driven Pre-Binding Antigen Cheng Tan, Yijie Zhang, Zhangyang Gao, Yufei Huang, Haitao Lin, Lirong Wu, Fandi Wu, Mathieu Blanchette, Stan Z. Li

AAAI 2024 Cross-Gate MLP with Protein Complex Invariant Embedding Is a One-Shot Antibody Designer Cheng Tan, Zhangyang Gao, Lirong Wu, Jun Xia, Jiangbin Zheng, Xihong Yang, Yue Liu, Bozhen Hu, Stan Z. Li

ICML 2024 Deciphering RNA Secondary Structure Prediction: A Probabilistic K-Rook Matching Perspective Cheng Tan, Zhangyang Gao, Hanqun Cao, Xingran Chen, Ge Wang, Lirong Wu, Jun Xia, Jiangbin Zheng, Stan Z. Li

ICLR 2024 Decoupling Weighing and Selecting for Integrating Multiple Graph Pre-Training Tasks Tianyu Fan, Lirong Wu, Yufei Huang, Haitao Lin, Cheng Tan, Zhangyang Gao, Stan Z. Li

ICML 2024 GeoAB: Towards Realistic Antibody Design and Reliable Affinity Maturation Haitao Lin, Lirong Wu, Yufei Huang, Yunfan Liu, Odin Zhang, Yuanqing Zhou, Rui Sun, Stan Z. Li

NeurIPS 2024 Learning Complete Protein Representation by Dynamically Coupling of Sequence and Structure Bozhen Hu, Cheng Tan, Jun Xia, Yue Liu, Lirong Wu, Jiangbin Zheng, Yongjie Xu, Yufei Huang, Stan Z. Li

ICML 2024 Learning to Predict Mutational Effects of Protein-Protein Interactions by Microenvironment-Aware Hierarchical Prompt Learning Lirong Wu, Yijun Tian, Haitao Lin, Yufei Huang, Siyuan Li, Nitesh V Chawla, Stan Z. Li

ICLR 2024 MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding Lirong Wu, Yijun Tian, Yufei Huang, Siyuan Li, Haitao Lin, Nitesh V Chawla, Stan Z. Li

ICML 2024 PPFLOW: Target-Aware Peptide Design with Torsional Flow Matching Haitao Lin, Odin Zhang, Huifeng Zhao, Dejun Jiang, Lirong Wu, Zicheng Liu, Yufei Huang, Stan Z. Li

AAAI 2024 PSC-CPI: Multi-Scale Protein Sequence-Structure Contrasting for Efficient and Generalizable Compound-Protein Interaction Prediction Lirong Wu, Yufei Huang, Cheng Tan, Zhangyang Gao, Bozhen Hu, Haitao Lin, Zicheng Liu, Stan Z. Li

NeurIPS 2024 ProtGO: Function-Guided Protein Modeling for Unified Representation Learning Bozhen Hu, Cheng Tan, Yongjie Xu, Zhangyang Gao, Jun Xia, Lirong Wu, Stan Z. Li

AAAI 2024 Protein 3D Graph Structure Learning for Robust Structure-Based Protein Property Prediction Yufei Huang, Siyuan Li, Lirong Wu, Jin Su, Haitao Lin, Odin Zhang, Zihan Liu, Zhangyang Gao, Jiangbin Zheng, Stan Z. Li

ICML 2024 Re-Dock: Towards Flexible and Realistic Molecular Docking with Diffusion Bridge Yufei Huang, Odin Zhang, Lirong Wu, Cheng Tan, Haitao Lin, Zhangyang Gao, Siyuan Li, Stan Z. Li

NeurIPS 2024 UniIF: Unified Molecule Inverse Folding Zhangyang Gao, Jue Wang, Cheng Tan, Lirong Wu, Yufei Huang, Siyuan Li, Zhirui Ye, Stan Z. Li

AAAI 2023 Extracting Low-/High- Frequency Knowledge from Graph Neural Networks and Injecting It into MLPs: An Effective GNN-to-MLP Distillation Framework Lirong Wu, Haitao Lin, Yufei Huang, Tianyu Fan, Stan Z. Li

NeurIPS 2023 Functional-Group-Based Diffusion for Pocket-Specific Molecule Generation and Elaboration Haitao Lin, Yufei Huang, Odin Zhang, Yunfan Liu, Lirong Wu, Siyuan Li, Zhiyuan Chen, Stan Z. Li

NeurIPS 2023 Harnessing Hard Mixed Samples with Decoupled Regularizer Zicheng Liu, Siyuan Li, Ge Wang, Lirong Wu, Cheng Tan, Stan Z. Li

ECML-PKDD 2023 Learning to Augment Graph Structure for Both Homophily and Heterophily Graphs Lirong Wu, Cheng Tan, Zihan Liu, Zhangyang Gao, Haitao Lin, Stan Z. Li

ICLRW 2023 Non-Equispaced Fourier Neural Solvers for PDEs Haitao Lin, Lirong Wu, Yongjie Xu, Yufei Huang, Siyuan Li, Guojiang Zhao, Stan Z. Li

NeurIPS 2023 OpenSTL: A Comprehensive Benchmark of Spatio-Temporal Predictive Learning Cheng Tan, Siyuan Li, Zhangyang Gao, Wenfei Guan, Zedong Wang, Zicheng Liu, Lirong Wu, Stan Z. Li

NeurIPS 2023 ProteinInvBench: Benchmarking Protein Inverse Folding on Diverse Tasks, Models, and Metrics Zhangyang Gao, Cheng Tan, Yijie Zhang, Xingran Chen, Lirong Wu, Stan Z. Li

ICML 2023 Quantifying the Knowledge in GNNs for Reliable Distillation into MLPs Lirong Wu, Haitao Lin, Yufei Huang, Stan Z. Li

CVPR 2023 Temporal Attention Unit: Towards Efficient Spatiotemporal Predictive Learning Cheng Tan, Zhangyang Gao, Lirong Wu, Yongjie Xu, Jun Xia, Siyuan Li, Stan Z. Li

ECCV 2022 AutoMix: Unveiling the Power of Mixup for Stronger Classifiers Zicheng Liu, Siyuan Li, Di Wu, Zihan Liu, Zhiyuan Chen, Lirong Wu, Stan Z. Li

AAAI 2022 Conditional Local Convolution for Spatio-Temporal Meteorological Forecasting Haitao Lin, Zhangyang Gao, Yongjie Xu, Lirong Wu, Ling Li, Stan Z. Li

TMLR 2022 Exploring Generative Neural Temporal Point Process Haitao Lin, Lirong Wu, Guojiang Zhao, Liu Pai, Stan Z. Li

WACV 2022 Generalized Clustering and Multi-Manifold Learning with Geometric Structure Preservation Lirong Wu, Zicheng Liu, Jun Xia, Zelin Zang, Siyuan Li, Stan Z. Li

ECML-PKDD 2022 GraphMixup: Improving Class-Imbalanced Node Classification by Reinforcement Mixup and Self-Supervised Context Prediction Lirong Wu, Jun Xia, Zhangyang Gao, Haitao Lin, Cheng Tan, Stan Z. Li

CVPR 2022 Hyperspherical Consistency Regularization Cheng Tan, Zhangyang Gao, Lirong Wu, Siyuan Li, Stan Z. Li

NeurIPS 2022 Knowledge Distillation Improves Graph Structure Augmentation for Graph Neural Networks Lirong Wu, Haitao Lin, Yufei Huang, Stan Z. Li

ICML 2022 ProGCL: Rethinking Hard Negative Mining in Graph Contrastive Learning Jun Xia, Lirong Wu, Ge Wang, Jintao Chen, Stan Z. Li

CVPR 2022 SimVP: Simpler yet Better Video Prediction Zhangyang Gao, Cheng Tan, Lirong Wu, Stan Z. Li

NeurIPS 2022 Towards Reasonable Budget Allocation in Untargeted Graph Structure Attacks via Gradient Debias Zihan Liu, Yun Luo, Lirong Wu, Zicheng Liu, Stan Z. Li

ECML-PKDD 2021 Invertible Manifold Learning for Dimension Reduction Siyuan Li, Haitao Lin, Zelin Zang, Lirong Wu, Jun Xia, Stan Z. Li

WACV 2020 A GAN-Based Tunable Image Compression System Lirong Wu, Kejie Huang, Haibin Shen