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Dayhoff likelihood

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16 evaluations · 32 results

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16 evaluations · 32 results. Different protocols are not a single leaderboard.

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FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Original source · Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256

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Stable ID: acquired-configuration-e1bdc3803aaf3904490c

source locator: Table A1; row Dayhoff likelihood; column spearman
reported configuration: Dayhoff likelihood
reference kind: not_a_reference
missing metadata: checkpoint revision: unreported; model family: unextracted

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Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Dayhoff likelihood	Protocol: FLIP2 Amylase far-to-close; held-out test set · Amylase Dataset subset: Amylase	0.58 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 Amylase far-to-close; held-out test set · Amylase FLIP2 Amylase far-to-close; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A3; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 IRED two-to-many; held-out test set · IRED Dataset subset: IRED	0.955 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 IRED two-to-many; held-out test set · IRED FLIP2 IRED two-to-many; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A5; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 PDZ3 single-to-double; held-out test set · PDZ3 Dataset subset: PDZ3	0.856 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 PDZ3 single-to-double; held-out test set · PDZ3 FLIP2 PDZ3 single-to-double; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A16; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 TrpB by-position; held-out test set · TrpB Dataset subset: TrpB	0.183 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 TrpB by-position; held-out test set · TrpB FLIP2 TrpB by-position; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A9; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 rhomax by-wild-type; held-out test set · rhomax Dataset subset: rhomax	0.019 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 rhomax by-wild-type; held-out test set · rhomax FLIP2 rhomax by-wild-type; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A15; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 Amylase by-mutation; held-out test set · Amylase Dataset subset: Amylase	0.499 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 Amylase by-mutation; held-out test set · Amylase FLIP2 Amylase by-mutation; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A4; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 TrpB one-to-many; held-out test set · TrpB Dataset subset: TrpB	0.991 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 TrpB one-to-many; held-out test set · TrpB FLIP2 TrpB one-to-many; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A7; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 Amylase one-to-many; held-out test set · Amylase Dataset subset: Amylase	0.522 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 Amylase one-to-many; held-out test set · Amylase FLIP2 Amylase one-to-many; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A1; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 hydro to-P01053; held-out test set · hydro Dataset subset: hydro	0.964 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 hydro to-P01053; held-out test set · hydro FLIP2 hydro to-P01053; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A14; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 hydro to-P06241; held-out test set · hydro Dataset subset: hydro	0.967 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 hydro to-P06241; held-out test set · hydro FLIP2 hydro to-P06241; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A12; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 hydro to-P06241; held-out test set · hydro Dataset subset: hydro	0.426 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 hydro to-P06241; held-out test set · hydro FLIP2 hydro to-P06241; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A12; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 Amylase by-mutation; held-out test set · Amylase Dataset subset: Amylase	0.917 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 Amylase by-mutation; held-out test set · Amylase FLIP2 Amylase by-mutation; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A4; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 hydro to-P0A9X9; held-out test set · hydro Dataset subset: hydro	0.151 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 hydro to-P0A9X9; held-out test set · hydro FLIP2 hydro to-P0A9X9; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A13; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 TrpB two-to-many; held-out test set · TrpB Dataset subset: TrpB	0.991 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 TrpB two-to-many; held-out test set · TrpB FLIP2 TrpB two-to-many; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A8; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 TrpB by-position; held-out test set · TrpB Dataset subset: TrpB	0.988 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 TrpB by-position; held-out test set · TrpB FLIP2 TrpB by-position; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A9; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 Amylase close-to-far; held-out test set · Amylase Dataset subset: Amylase	0.943 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 Amylase close-to-far; held-out test set · Amylase FLIP2 Amylase close-to-far; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A2; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 rhomax by-wild-type; held-out test set · rhomax Dataset subset: rhomax	0.902 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 rhomax by-wild-type; held-out test set · rhomax FLIP2 rhomax by-wild-type; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A15; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 IRED two-to-many; held-out test set · IRED Dataset subset: IRED	0.142 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 IRED two-to-many; held-out test set · IRED FLIP2 IRED two-to-many; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A5; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 hydro low-to-high; held-out test set · hydro Dataset subset: hydro	0.308 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 hydro low-to-high; held-out test set · hydro FLIP2 hydro low-to-high; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A11; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 Amylase close-to-far; held-out test set · Amylase Dataset subset: Amylase	0.538 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 Amylase close-to-far; held-out test set · Amylase FLIP2 Amylase close-to-far; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A2; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 hydro three-to-many; held-out test set · hydro Dataset subset: hydro	0.387 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 hydro three-to-many; held-out test set · hydro FLIP2 hydro three-to-many; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A10; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 NucB two-to-many; held-out test set · NucB Dataset subset: NucB	0.919 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 NucB two-to-many; held-out test set · NucB FLIP2 NucB two-to-many; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A6; row Dayhoff likelihood; column ndcg
Configuration: Dayhoff likelihood	Protocol: FLIP2 PDZ3 single-to-double; held-out test set · PDZ3 Dataset subset: PDZ3	−0.007 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 PDZ3 single-to-double; held-out test set · PDZ3 FLIP2 PDZ3 single-to-double; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A16; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 TrpB two-to-many; held-out test set · TrpB Dataset subset: TrpB	0.139 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 TrpB two-to-many; held-out test set · TrpB FLIP2 TrpB two-to-many; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A8; row Dayhoff likelihood; column spearman
Configuration: Dayhoff likelihood	Protocol: FLIP2 hydro three-to-many; held-out test set · hydro Dataset subset: hydro	0.97 ndcg unitless · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Dayhoff likelihood · FLIP2 hydro three-to-many; held-out test set · hydro FLIP2 hydro three-to-many; held-out test set Aggregation: reported point estimate FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A10; row Dayhoff likelihood; column ndcg