Yufei Huang

Publication Activity (10 Years)

Years Active: 2024-2024
Publications (10 Years): 18

Top Topics

Integrating Multiple

Vector Quantization

Experimentally Determined

Systematic Evaluation

Top Venues

Publications

Rui Sun, Lirong Wu, Haitao Lin, Yufei Huang, Stan Z. Li
Enhancing Protein Predictive Models via Proteins Data Augmentation: A Benchmark and New Directions. CoRR (2024)
Lirong Wu, Yunfan Liu, Haitao Lin, Yufei Huang, Stan Z. Li
Teach Harder, Learn Poorer: Rethinking Hard Sample Distillation for GNN-to-MLP Knowledge Distillation. 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. CoRR (2024)
Haitao Lin, Guojiang Zhao, Odin Zhang, Yufei Huang, Lirong Wu, Zicheng Liu, Siyuan Li, Cheng Tan, Zhifeng Gao, Stan Z. Li
CBGBench: Fill in the Blank of Protein-Molecule Complex Binding Graph. CoRR (2024)
Odin Zhang, Haitao Lin, Hui Zhang, Huifeng Zhao, Yufei Huang, Yuansheng Huang, Dejun Jiang, Chang-Yu Hsieh, Peichen Pan, Tingjun Hou
Deep Lead Optimization: Leveraging Generative AI for Structural Modification. CoRR (2024)
Haitao Lin, Odin Zhang, Huifeng Zhao, Dejun Jiang, Lirong Wu, Zicheng Liu, Yufei Huang, Stan Z. Li
PPFlow: Target-aware Peptide Design with Torsional Flow Matching. 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)
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)
Zicheng Liu, Jiahui Li, Siyuan Li, Zelin Zang, Cheng Tan, Yufei Huang, Yajing Bai, Stan Z. Li
GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models. 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)
Zhangyang Gao, Jue Wang, Cheng Tan, Lirong Wu, Yufei Huang, Siyuan Li, Zhirui Ye, Stan Z. Li
UniIF: Unified Molecule Inverse Folding. CoRR (2024)
Lirong Wu, Yijun Tian, Yufei Huang, Siyuan Li, Haitao Lin, Nitesh V. Chawla, Stan Z. Li
MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding. CoRR (2024)
Lirong Wu, Yijun Tian, Yufei Huang, Siyuan Li, Haitao Lin, Nitesh V. Chawla, Stan Z. Li
MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding. ICLR (2024)
Odin Zhang, Yufei Huang, Shichen Cheng, Mengyao Yu, Xujun Zhang, Haitao Lin, Yundian Zeng, Mingyang Wang, Zhenxing Wu, Huifeng Zhao, Zaixi Zhang, Chenqing Hua, Yu Kang, Sunliang Cui, Peichen Pan, Chang-Yu Hsieh, Tingjun Hou
Deep Geometry Handling and Fragment-wise Molecular 3D Graph Generation. CoRR (2024)
Lirong Wu, Yijun Tian, Haitao Lin, Yufei Huang, Siyuan Li, Nitesh V. Chawla, Stan Z. Li
Learning to Predict Mutation Effects of Protein-Protein Interactions by Microenvironment-aware Hierarchical Prompt Learning. CoRR (2024)
Siyuan Li, Zedong Wang, Zicheng Liu, Di Wu, Cheng Tan, Jiangbin Zheng, Yufei Huang, Stan Z. Li
VQDNA: Unleashing the Power of Vector Quantization for Multi-Species Genomic Sequence Modeling. CoRR (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)