DPLM
Protein foundation model evaluated by the PFMBench authors under their fine-tuning protocol. Input family: Sequence.
Overview
Protein foundation model evaluated by the PFMBench authors under their fine-tuning protocol. Input family: Sequence.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Evaluations and results
Release 2026-09-17-134cd1815de8 · 12 evaluations · 12 metric rows. Different protocols are not a single leaderboard. Where several source tables report the same metric, the published comparisons above offer a pooled view that names what it does not hold constant.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| DPLM on PFMBench ANTI-RES: Antibiotic resistance Configuration: DPLMTask: PFMBench ANTI-RES: Antibiotic resistanceDataset subset: Antibiotic resistance (PFMBench split) Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0 .68732 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(Anti.Res.) Source checking is not independent reproduction. |
| DPLM on PFMBench BINDING-DB: BindingDB Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.17408 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(Bind. DB) Source checking is not independent reproduction. |
| DPLM on PFMBench CLONING-CLF: Cloning CLF Configuration: DPLMTask: PFMBench CLONING-CLF: Cloning CLFDataset subset: Cloning CLF (PFMBench split) Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.81247 auroc Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(Clo. CLF) Source checking is not independent reproduction. |
| DPLM on PFMBench DEEPLOC2: DeepLoc2 Multi Configuration: DPLMTask: PFMBench DEEPLOC2: DeepLoc2 MultiDataset subset: DeepLoc2 Multi (PFMBench split) Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.75759 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(DL2 M.) Source checking is not independent reproduction. |
| DPLM on PFMBench DEEPSOL: DeepSol Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.82841 auroc Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(DeepSol) Source checking is not independent reproduction. |
| DPLM on PFMBench EC: Enzyme Commission Configuration: DPLMTask: PFMBench EC: Enzyme CommissionDataset subset: Enzyme Commission (PFMBench split) Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.75521 f1 Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(EC) Source checking is not independent reproduction. |
| DPLM on PFMBench MAT-PROD: Material production Configuration: DPLMTask: PFMBench MAT-PROD: Material productionDataset subset: Material production (PFMBench split) Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.80144 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(Mat.Pro.) Source checking is not independent reproduction. |
| DPLM on PFMBench METAL-ION: Metal ion binding Configuration: DPLMTask: PFMBench METAL-ION: Metal ion bindingDataset subset: Metal ion binding (PFMBench split) Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.70056 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(M. I. Bin.) Source checking is not independent reproduction. |
| DPLM on PFMBench PDB-BIND: PDBbind Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.13659 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(PDBBind) Source checking is not independent reproduction. |
| DPLM on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction Configuration: DPLMTask: PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect predictionDataset subset: ProteinGym (PFMBench split) Scored zero-shot, with no fine-tuning, as reported in PFMBench Table 4. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.42922 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 4, row(DPLM [ 68 ]), column(ProteinGym) Source checking is not independent reproduction. |
| DPLM on PFMBench SEC-STRUCT: Secondary structure Configuration: DPLMTask: PFMBench SEC-STRUCT: Secondary structureDataset subset: Secondary structure (PFMBench split) Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.75695 accuracy Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(Sec. Str.) Source checking is not independent reproduction. |
| DPLM on PFMBench STABILITY: TAPE_Stability Configuration: DPLMTask: PFMBench STABILITY: TAPE_StabilityDataset subset: TAPE_Stability (PFMBench split) Fine-tuned with an adapter under the PFMBench harness; train, validation and test counts are in Table 1. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.29440 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedpfmbench primary benchmark evidence · Table 3, row(DPLM [ 68 ]), column(Stability) Source checking is not independent reproduction. |
Evidence table
Inspect claims, sources and review details
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
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| Property and statement | Original source and location | Review and provenance |
|---|
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Sources and history
Release 2026-09-17-134cd1815de8 · Record review: source checked
1 source records and release history
- pfmbench primary benchmark evidence · Original source · 2506.14796v1
Technical metadata and extraction receipts
Stable ID: pfmbench-method-dplm
- areas
- proteins-complexes
- source locator
- Table 3, row(DPLM [ 68 ])
- missing metadata
- checkpoint revision: unreported; parameters: unextracted
Related records
- model: DPLM on PFMBench ANTI-RES: Antibiotic resistance
- model: DPLM on PFMBench BINDING-DB: BindingDB
- model: DPLM on PFMBench CLONING-CLF: Cloning CLF
- model: DPLM on PFMBench DEEPLOC2: DeepLoc2 Multi
- model: DPLM on PFMBench DEEPSOL: DeepSol
- model: DPLM on PFMBench EC: Enzyme Commission
- model: DPLM on PFMBench MAT-PROD: Material production
- model: DPLM on PFMBench METAL-ION: Metal ion binding
- model: DPLM on PFMBench PDB-BIND: PDBbind
- model: DPLM on PFMBench PROTEINGYM-ZS: ProteinGym zero-shot variant effect prediction
- model: DPLM on PFMBench SEC-STRUCT: Secondary structure
- model: DPLM on PFMBench STABILITY: TAPE_Stability