Zhangyang Gao

Publication Activity (10 Years)

Years Active: 2020-2024
Publications (10 Years): 73

Top Topics

Diffusion Model

Protein Structure

Top Venues

IEEE Trans. Knowl. Data Eng.

Publications

Lirong Wu, Haitao Lin, Bozhen Hu, Cheng Tan, Zhangyang Gao, Zicheng Liu, Stan Z. Li
Beyond Homophily and Homogeneity Assumption: Relation-Based Frequency Adaptive Graph Neural Networks. IEEE Trans. Neural Networks Learn. Syst. 35 (6) (2024)
Tianyu Fan, Lirong Wu, Yufei Huang, Haitao Lin, Cheng Tan, Zhangyang Gao, Stan Z. Li
Decoupling Weighing and Selecting for Integrating Multiple Graph Pre-training Tasks. CoRR (2024)
Zhangyang Gao, Cheng Tan, Stan Z. Li
FoldToken2: Learning compact, invariant and generative protein structure language. CoRR (2024)
Zhe Li, Zhangyang Gao, Cheng Tan, Stan Z. Li, Laurence T. Yang
DCS-Net: Pioneering Leakage-Free Point Cloud Pretraining Framework with Global Insights. CoRR (2024)
Lirong Wu, Yufei Huang, Cheng Tan, Zhangyang Gao, Bozhen Hu, Haitao Lin, Zicheng Liu, Stan Z. Li
PSC-CPI: Multi-Scale Protein Sequence-Structure Contrasting for Efficient and Generalizable Compound-Protein Interaction Prediction. CoRR (2024)
Lirong Wu, Haitao Lin, Zhangyang Gao, Guojiang Zhao, Stan Z. Li
A Teacher-Free Graph Knowledge Distillation Framework with Dual Self-Distillation. CoRR (2024)
Yufei Huang, Siyuan Li, Lirong Wu, Jin Su, Haitao Lin, Odin Zhang, Zihan Liu, Zhangyang Gao, Jiangbin Zheng, Stan Z. Li
Protein 3D Graph Structure Learning for Robust Structure-Based Protein Property Prediction. AAAI (2024)
Cheng Tan, Yijie Zhang, Zhangyang Gao, Bozhen Hu, Siyuan Li, Zicheng Liu, Stan Z. Li
RDesign: Hierarchical Data-efficient Representation Learning for Tertiary Structure-based RNA Design. ICLR (2024)
Zhangyang Gao, Daize Dong, Cheng Tan, Jun Xia, Bozhen Hu, Stan Z. Li
A Graph is Worth K Words: Euclideanizing Graph using Pure Transformer. CoRR (2024)
Cheng Tan, Zhangyang Gao, Lirong Wu, Jun Xia, Jiangbin Zheng, Xihong Yang, Yue Liu, Bozhen Hu, Stan Z. Li
Cross-Gate MLP with Protein Complex Invariant Embedding Is a One-Shot Antibody Designer. AAAI (2024)
Lirong Wu, Haitao Lin, Zhangyang Gao, Guojiang Zhao, Stan Z. Li
A Teacher-Free Graph Knowledge Distillation Framework With Dual Self-Distillation. IEEE Trans. Knowl. Data Eng. 36 (9) (2024)
Jun Xia, Shaorong Chen, Yue Liu, Zhangyang Gao, Jiangbin Zheng, Xihong Yang, Stan Z. Li
DiscoGNN: A Sample-Efficient Framework for Self-Supervised Graph Representation Learning. ICDE (2024)
Yufei Huang, Odin Zhang, Lirong Wu, Cheng Tan, Haitao Lin, Zhangyang Gao, Siyuan Li, Stan Z. Li
Re-Dock: Towards Flexible and Realistic Molecular Docking with Diffusion Bridge. CoRR (2024)
Cheng Tan, Jingxuan Wei, Linzhuang Sun, Zhangyang Gao, Siyuan Li, Bihui Yu, Ruifeng Guo, Stan Z. Li
Retrieval Meets Reasoning: Even High-school Textbook Knowledge Benefits Multimodal Reasoning. CoRR (2024)
Lirong Wu, Yufei Huang, Cheng Tan, Zhangyang Gao, Bozhen Hu, Haitao Lin, Zicheng Liu, Stan Z. Li
PSC-CPI: Multi-Scale Protein Sequence-Structure Contrasting for Efficient and Generalizable Compound-Protein Interaction Prediction. AAAI (2024)
Hanqun Cao, Cheng Tan, Zhangyang Gao, Yilun Xu, Guangyong Chen, Pheng-Ann Heng, Stan Z. Li
A Survey on Generative Diffusion Models. IEEE Trans. Knowl. Data Eng. 36 (7) (2024)
Ziqing Xia, Zhangyang Gao, Anfeng Liu, Neal N. Xiong
AQND: An asymmetric quorum-based neighbor discovery protocol for reducing delay in sensor based systems. Inf. Sci. 654 (2024)
Zhangyang Gao, Jue Wang, Cheng Tan, Lirong Wu, Yufei Huang, Siyuan Li, Zhirui Ye, Stan Z. Li
UniIF: Unified Molecule Inverse Folding. CoRR (2024)
Zhe Li, Laurence T. Yang, Bocheng Ren, Xin Nie, Zhangyang Gao, Cheng Tan, Stan Z. Li
MLIP: Enhancing Medical Visual Representation with Divergence Encoder and Knowledge-guided Contrastive Learning. CoRR (2024)
Cheng Tan, Dongxin Lyu, Siyuan Li, Zhangyang Gao, Jingxuan Wei, Siqi Ma, Zicheng Liu, Stan Z. Li
Peer Review as A Multi-Turn and Long-Context Dialogue with Role-Based Interactions. CoRR (2024)
Zhangyang Gao, Cheng Tan, Xingran Chen, Yijie Zhang, Jun Xia, Siyuan Li, Stan Z. Li
KW-Design: Pushing the Limit of Protein Design via Knowledge Refinement. ICLR (2024)
Zhangyang Gao, Cheng Tan, Jue Wang, Yufei Huang, Lirong Wu, Stan Z. Li
FoldToken: Learning Protein Language via Vector Quantization and Beyond. CoRR (2024)
Tianyu Fan, Lirong Wu, Yufei Huang, Haitao Lin, Cheng Tan, Zhangyang Gao, Stan Z. Li
Decoupling Weighing and Selecting for Integrating Multiple Graph Pre-training Tasks. ICLR (2024)
Cheng Tan, Zhangyang Gao, Jun Xia, Bozhen Hu, Stan Z. Li
Global-Context Aware Generative Protein Design. ICASSP (2023)
Cheng Tan, Jingxuan Wei, Zhangyang Gao, Linzhuang Sun, Siyuan Li, Xihong Yang, Stan Z. Li
Boosting the Power of Small Multimodal Reasoning Models to Match Larger Models with Self-Consistency Training. CoRR (2023)
Jiangbin Zheng, Siyuan Li, Yufei Huang, Zhangyang Gao, Cheng Tan, Bozhen Hu, Jun Xia, Ge Wang, Stan Z. Li
MMDesign: Multi-Modality Transfer Learning for Generative Protein Design. CoRR (2023)
Jingxuan Wei, Cheng Tan, Zhangyang Gao, Linzhuang Sun, Siyuan Li, Bihui Yu, Ruifeng Guo, Stan Z. Li
Enhancing Human-like Multi-Modal Reasoning: A New Challenging Dataset and Comprehensive Framework. CoRR (2023)
Cheng Tan, Jue Wang, Zhangyang Gao, Siyuan Li, Lirong Wu, Jun Xia, Stan Z. Li
Revisiting the Temporal Modeling in Spatio-Temporal Predictive Learning under A Unified View. CoRR (2023)
Cheng Tan, Zhangyang Gao, Stan Z. Li
Cross-Gate MLP with Protein Complex Invariant Embedding is A One-Shot Antibody Designer. CoRR (2023)
Jun Xia, Chengshuai Zhao, Bozhen Hu, Zhangyang Gao, Cheng Tan, Yue Liu, Siyuan Li, Stan Z. Li
Mole-BERT: Rethinking Pre-training Graph Neural Networks for Molecules. ICLR (2023)
Cheng Tan, Siyuan Li, Zhangyang Gao, Wenfei Guan, Zedong Wang, Zicheng Liu, Lirong Wu, Stan Z. Li
OpenSTL: A Comprehensive Benchmark of Spatio-Temporal Predictive Learning. CoRR (2023)
Yufei Huang, Siyuan Li, Jin Su, Lirong Wu, Odin Zhang, Haitao Lin, Jingqi Qi, Zihan Liu, Zhangyang Gao, Yuyang Liu, Jiangbin Zheng, Stan. ZQ. Li
Protein 3D Graph Structure Learning for Robust Structure-based Protein Property Prediction. CoRR (2023)
Zhangyang Gao, Cheng Tan, Jun Xia, Stan Z. Li
Co-supervised Pre-training of Pocket and Ligand. ECML/PKDD (1) (2023)
Zhangyang Gao, Cheng Tan, Stan Z. Li
DiffSDS: A language diffusion model for protein backbone inpainting under geometric conditions and constraints. CoRR (2023)
Zhangyang Gao, Cheng Tan, Stan Z. Li
PiFold: Toward effective and efficient protein inverse folding. ICLR (2023)
Jun Xia, Lecheng Zhang, Xiao Zhu, Yue Liu, Zhangyang Gao, Bozhen Hu, Cheng Tan, Jiangbin Zheng, Siyuan Li, Stan Z. Li
Understanding the Limitations of Deep Models for Molecular property prediction: Insights and Solutions. NeurIPS (2023)
Cheng Tan, Zhangyang Gao, Lirong Wu, Yongjie Xu, Jun Xia, Siyuan Li, Stan Z. Li
Temporal Attention Unit: Towards Efficient Spatiotemporal Predictive Learning. CVPR (2023)
Cheng Tan, Siyuan Li, Zhangyang Gao, Wenfei Guan, Zedong Wang, Zicheng Liu, Lirong Wu, Stan Z. Li
OpenSTL: A Comprehensive Benchmark of Spatio-Temporal Predictive Learning. NeurIPS (2023)
Zhe Li, Zhangyang Gao, Cheng Tan, Stan Z. Li, Laurence T. Yang
General Point Model with Autoencoding and Autoregressive. CoRR (2023)
Zhangyang Gao, Cheng Tan, Stan Z. Li
Knowledge-Design: Pushing the Limit of Protein Design via Knowledge Refinement. CoRR (2023)
Zhangyang Gao, Xingran Chen, Cheng Tan, Stan Z. Li
MotifRetro: Exploring the Combinability-Consistency Trade-offs in retrosynthesis via Dynamic Motif Editing. CoRR (2023)
Zhangyang Gao, Yuqi Hu, Cheng Tan, Stan Z. Li
PrefixMol: Target- and Chemistry-aware Molecule Design via Prefix Embedding. CoRR (2023)
Yijie Zhang, Zhangyang Gao, Cheng Tan, Stan Z. Li
Efficiently Predicting Protein Stability Changes Upon Single-point Mutation with Large Language Models. CoRR (2023)
Cheng Tan, Zhangyang Gao, Stan Z. Li
Generative Tertiary Structure-based RNA Design. CoRR (2023)
Cheng Tan, Zhangyang Gao, Stan Z. Li
Target-Aware Molecular Graph Generation. ECML/PKDD (6) (2023)
Zhangyang Gao, Cheng Tan, Yijie Zhang, Xingran Chen, Lirong Wu, Stan Z. Li
ProteinInvBench: Benchmarking Protein Inverse Folding on Diverse Tasks, Models, and Metrics. NeurIPS (2023)
Zhangyang Gao, Cheng Tan, Stan Z. Li
VQPL: Vector Quantized Protein Language. CoRR (2023)
Lirong Wu, Cheng Tan, Zihan Liu, Zhangyang Gao, Haitao Lin, Stan Z. Li
Learning to Augment Graph Structure for both Homophily and Heterophily Graphs. ECML/PKDD (3) (2023)
Lirong Wu, Haitao Lin, Cheng Tan, Zhangyang Gao, Stan Z. Li
Self-Supervised Learning on Graphs: Contrastive, Generative, or Predictive. IEEE Trans. Knowl. Data Eng. 35 (4) (2023)
Zhangyang Gao, Cheng Tan, Stan Z. Li
PiFold: Toward effective and efficient protein inverse folding. CoRR (2022)
Zhangyang Gao, Cheng Tan, Stan Z. Li
AlphaDesign: A graph protein design method and benchmark on AlphaFoldDB. CoRR (2022)
Cheng Tan, Zhangyang Gao, Stan Z. Li
RFold: Towards Simple yet Effective RNA Secondary Structure Prediction. CoRR (2022)
Cheng Tan, Zhangyang Gao, Siyuan Li, Yongjie Xu, Stan Z. Li
Temporal Attention Unit: Towards Efficient Spatiotemporal Predictive Learning. CoRR (2022)
Zhangyang Gao, Cheng Tan, Lirong Wu, Stan Z. Li
SimVP: Simpler yet Better Video Prediction. CVPR (2022)
Hanqun Cao, Cheng Tan, Zhangyang Gao, Guangyong Chen, Pheng-Ann Heng, Stan Z. Li
A Survey on Generative Diffusion Model. CoRR (2022)
Lirong Wu, Jun Xia, Haitao Lin, Zhangyang Gao, Zicheng Liu, Guojiang Zhao, Stan Z. Li
Teaching Yourself: Graph Self-Distillation on Neighborhood for Node Classification. CoRR (2022)
Haitao Lin, Zhangyang Gao, Yongjie Xu, Lirong Wu, Ling Li, Stan Z. Li
Conditional Local Convolution for Spatio-Temporal Meteorological Forecasting. AAAI (2022)
Zhangyang Gao, Cheng Tan, Lirong Wu, Stan Z. Li
SimVP: Simpler yet Better Video Prediction. CoRR (2022)
Cheng Tan, Zhangyang Gao, Stan Z. Li
Target-aware Molecular Graph Generation. CoRR (2022)
Zhangyang Gao, Cheng Tan, Lirong Wu, Stan Z. Li
SemiRetro: Semi-template framework boosts deep retrosynthesis prediction. CoRR (2022)
Cheng Tan, Zhangyang Gao, Stan Z. Li
SimVP: Towards Simple yet Powerful Spatiotemporal Predictive Learning. CoRR (2022)
Cheng Tan, Zhangyang Gao, Lirong Wu, Siyuan Li, Stan Z. Li
Hyperspherical Consistency Regularization. CoRR (2022)
Cheng Tan, Zhangyang Gao, Lirong Wu, Siyuan Li, Stan Z. Li
Hyperspherical Consistency Regularization. CVPR (2022)
Cheng Tan, Zhangyang Gao, Jun Xia, Stan Z. Li
Generative De Novo Protein Design with Global Context. CoRR (2022)
Lirong Wu, Jun Xia, Zhangyang Gao, Haitao Lin, Cheng Tan, Stan Z. Li
GraphMixup: Improving Class-Imbalanced Node Classification by Reinforcement Mixup and Self-supervised Context Prediction. ECML/PKDD (4) (2022)
Zhangyang Gao, Cheng Tan, Lirong Wu, Stan Z. Li
CoSP: Co-supervised pretraining of pocket and ligand. CoRR (2022)
Haitao Lin, Cheng Tan, Lirong Wu, Zhangyang Gao, Stan Z. Li
Extensive Deep Temporal Point Process. CoRR (2021)
Zhangyang Gao, Haitao Lin, Cheng Tan, Lirong Wu, Stan Z. Li
Git: Clustering Based on Graph of Intensity Topology. CoRR (2021)
Lirong Wu, Haitao Lin, Zhangyang Gao, Cheng Tan, Stan Z. Li
Self-supervised on Graphs: Contrastive, Generative, or Predictive. CoRR (2021)
Haitao Lin, Zhangyang Gao, Lirong Wu, Stan Z. Li
Conditional Local Filters with Explainers for Spatio-Temporal Forecasting. CoRR (2021)
Lirong Wu, Haitao Lin, Zhangyang Gao, Cheng Tan, Stan Z. Li
GraphMixup: Improving Class-Imbalanced Node Classification on Graphs by Self-supervised Context Prediction. CoRR (2021)
Zhangyang Gao, Haitao Lin, Stan Z. Li
Clustering Based on Graph of Density Topology. CoRR (2020)
Zhangyang Gao, Haitao Lin, Stan Z. Li
LookHops: light multi-order convolution and pooling for graph classification. CoRR (2020)