122 citations · 549 across the 65 of their papers we have counts for
6 papers · 1 filter
Multimodal Regression for Enzyme Turnover Rates Prediction
Bozhen Hu, Cheng Tan, Siyuan Li +4
The enzyme turnover rate is a fundamental parameter in enzyme kinetics, reflecting the catalytic efficiency of enzymes. However, enzyme turnover rates remain scarce across most org…
Protein-SE(3): Benchmarking SE(3)-based Generative Models for Protein Structure Design
Lang Yu, Zhangyang Gao, Cheng Tan +3
SE(3)-based generative models have shown great promise in protein geometry modeling and effective structure design. However, the field currently lacks a modularized benchmark to en…
AlphaFold Database Debiasing for Robust Inverse Folding
Cheng Tan, Zhenxiao Cao, Zhangyang Gao +3
The AlphaFold Protein Structure Database (AFDB) offers unparalleled structural coverage at near-experimental accuracy, positioning it as a valuable resource for data-driven protein…
PFMBench: Protein Foundation Model Benchmark
Zhangyang Gao, Hao Wang, Cheng Tan +6
This study investigates the current landscape and future directions of protein foundation model research. While recent advancements have transformed protein science and engineering…
ProtInvTree: Deliberate Protein Inverse Folding with Reward-guided Tree Search
Mengdi Liu, Xiaoxue Cheng, Zhangyang Gao +4
Designing protein sequences that fold into a target 3D structure, known as protein inverse folding, is a fundamental challenge in protein engineering. While recent deep learning me…
dyAb: Flow Matching for Flexible Antibody Design with AlphaFold-driven Pre-binding Antigen
Cheng Tan, Yijie Zhang, Zhangyang Gao +6
The development of therapeutic antibodies heavily relies on accurate predictions of how antigens will interact with antibodies. Existing computational methods in antibody design of…