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Status: Unchecked ×Keyword: structure-based design ×Clear all

2 claims from 1 paper

1. Biochemistry, Genetics and Molecular Biology › Protein Structure and Dynamics

   Simple baselines rival protein language models in mutation-dense design of function tasks

   Talpir and Fleishman · bioRxiv (Cold Spring Harbor Laboratory) · 2026

   The authors benchmarked widely used protein language models against conventional baselines on dense, experimentally validated multi-mutant landscapes, and suggest the models may need biophysical or structural information.

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   1. UncheckedIn dense multi-mutant protein datasets, protein language models perform similarly to each other and none consistently beats conventional baseline methods.“We find that regardless of architecture and parameter count, pLMs are statistically similar to one another, and none consistently outperforms conventional baseline methods.”
   2. UncheckedProtein language models distinguish functional from non-functional variants in zero-shot prediction about as well as conventional homology-based methods.“Furthermore, their ability to distinguish functional from non-functional variants in zero-shot prediction is comparable to that of conventional homology-based methods.”