The split of ProteinGym that PFMBench evaluated on. The upstream dataset release is not catalogued here, so no claim is made that this matches its original splits.
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9 evaluations · 9 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: DPLM | Task: PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Dataset subset: ProteinGym (PFMBench split) | 0.429 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceDPLM on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Scored zero-shot, with no fine-tuning, as reported in PFMBench Table 4. Aggregation: Not reported pfmbench primary benchmark evidence · Table 4, row(DPLM [ 68 ]), column(ProteinGym) |
| Configuration: ESM-2 | Task: PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Dataset subset: ProteinGym (PFMBench split) | 0.439 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceESM-2 on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Scored zero-shot, with no fine-tuning, as reported in PFMBench Table 4. Aggregation: Not reported pfmbench primary benchmark evidence · Table 4, row(ESM-2 [ 35 ]), column(ProteinGym) |
| Configuration: ESM-C | Task: PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Dataset subset: ProteinGym (PFMBench split) | 0.434 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceESM-C on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Scored zero-shot, with no fine-tuning, as reported in PFMBench Table 4. Aggregation: Not reported pfmbench primary benchmark evidence · Table 4, row(ESM-C), column(ProteinGym) |
| Configuration: ESM3 | Task: PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Dataset subset: ProteinGym (PFMBench split) | 0.414 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceESM3 on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Scored zero-shot, with no fine-tuning, as reported in PFMBench Table 4. Aggregation: Not reported pfmbench primary benchmark evidence · Table 4, row(ESM3 [ 18 ]), column(ProteinGym) |
| Configuration: PGLM | Task: PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Dataset subset: ProteinGym (PFMBench split) | 0.398 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcePGLM on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Scored zero-shot, with no fine-tuning, as reported in PFMBench Table 4. Aggregation: Not reported pfmbench primary benchmark evidence · Table 4, row(PGLM [ 5 ]), column(ProteinGym) |
| Configuration: ProtGPT2 | Task: PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Dataset subset: ProteinGym (PFMBench split) | 0.19 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceProtGPT2 on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Scored zero-shot, with no fine-tuning, as reported in PFMBench Table 4. Aggregation: Not reported pfmbench primary benchmark evidence · Table 4, row(ProtGPT2 [ 12 ]), column(ProteinGym) |
| Configuration: ProTrek | Task: PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Dataset subset: ProteinGym (PFMBench split) | 0.359 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceProTrek on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Scored zero-shot, with no fine-tuning, as reported in PFMBench Table 4. Aggregation: Not reported pfmbench primary benchmark evidence · Table 4, row(ProTrek [ 56 ]), column(ProteinGym) |
| Configuration: SaProt | Task: PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Dataset subset: ProteinGym (PFMBench split) | 0.451 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceSaProt on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Scored zero-shot, with no fine-tuning, as reported in PFMBench Table 4. Aggregation: Not reported pfmbench primary benchmark evidence · Table 4, row(SaProt [ 55 ]), column(ProteinGym) |
| Configuration: VenusPLM | Task: PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Dataset subset: ProteinGym (PFMBench split) | 0.44 spearman correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceVenusPLM on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Scored zero-shot, with no fine-tuning, as reported in PFMBench Table 4. Aggregation: Not reported pfmbench primary benchmark evidence · Table 4, row(VenusPLM [ 59 ]), column(ProteinGym) |
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2 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| description The split of ProteinGym that PFMBench evaluated on. The upstream dataset release is not catalogued here, so no claim is made that this matches its original splits. Context-only references | pfmbench primary benchmark evidence No field-specific location recorded Version: 2506.14796v1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| name ProteinGym (PFMBench split) Context-only references | pfmbench primary benchmark evidence No field-specific location recorded Version: 2506.14796v1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
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Release 2026-09-29-06401fd5b220 · Record review: source checked
Stable ID: pfmbench-dataset-proteingym