Jeffrey Ouyang-Zhang

The paper benchmarks structure prediction models for scFv-Ag complexes using a large-scale dataset and evaluates confidence metrics for selecting high-quality predictions.

This paper introduces SLEEC, a semi-supervised framework for enzyme classification that achieves state-of-the-art performance and provides residue-level annotations.

Treating low-confidence AlphaFold structures as noisy data at pLDDT-dependent diffusion times lets a 16.7M-parameter model generate long proteins with higher diversity, designability and novelty than Proteína.

The paper introduces ISM, a sequence-only model that improves upon ESM2 by incorporating structural information, achieving better performance on mutation stability and structure prediction tasks.