A comprehensive benchmark of 17 protein foundation models across 38 tasks yields task correlations, a streamlined protocol, and identifies ProTrek as the strongest general performer.
Foundation models of protein sequences: A brief overview.Current Opinion in Structural Biology, 91:103004, 2025
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PFMBench: Protein Foundation Model Benchmark
A comprehensive benchmark of 17 protein foundation models across 38 tasks yields task correlations, a streamlined protocol, and identifies ProTrek as the strongest general performer.