Summary
Additive models like ridge regression are competitive with deep learning models at ranking protein fitness even in the presence of test set epistasis (1).
See also
- No one-size-fits-all best approach to zero-shot or few-shot protein fitness prediction
- Protein language models are able to predict epistasis in a zero-shot setting following a nonlinear transform
1.
Didi K, Alamdari S, Lu AX, Wittmann B, Johnston KE, Amini AP, et al. FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications. openRxiv; 2026. Available from: https://doi.org/10.64898/2026.02.23.707496