11 citations · 12 across the 5 of their papers we have counts for
5 papers
ProtDBench: A Unified Benchmark of Protein Binder Design and Evaluation
Cong Liu, Milong Ren, Jiaqi Guan +4
Recent advances in de novo protein binder design have enabled increasing experimental validation, yet reported in silico metrics remain difficult to interpret or compare across stu…
A-CODE: Fully Atomic Protein Co-Design with Unified Multimodal Diffusion
Chaoran Cheng, Jiaqi Guan, Milong Ren +5
We present A-CODE, a fully atomic unified one-stage protein co-design model that simultaneously refines discrete atom types and continuous atom coordinates. Unlike predominant two-…
Improving Molecular Graph Generation with Flow Matching and Optimal Transport
Xiaoyang Hou, Tian Zhu, Milong Ren +4
Generating molecular graphs is crucial in drug design and discovery but remains challenging due to the complex interdependencies between nodes and edges. While diffusion models hav…
Predicting mutational effects on protein-protein binding via a side-chain diffusion probabilistic model
Shiwei Liu, Tian Zhu, Milong Ren +3
Many crucial biological processes rely on networks of protein-protein interactions. Predicting the effect of amino acid mutations on protein-protein binding is vital in protein eng…
NIERT: Accurate Numerical Interpolation through Unifying Scattered Data Representations using Transformer Encoder
Shizhe Ding, Boyang Xia, Milong Ren +1
Interpolation for scattered data is a classical problem in numerical analysis, with a long history of theoretical and practical contributions. Recent advances have utilized deep ne…