Evaluation

SIFT: ProteinGym clinical substitutions, zero-shot, average AUC (commit 144fe22)

Official ProteinGym summary row; transcribed, not reproduced.

Evaluation results

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Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: SIFT [ProteinGym 144fe22 clinical summary]	Protocol: ProteinGym clinical substitutions, zero-shot, average AUC (commit 144fe22) Dataset subset: ProteinGym clinical substitution benchmark at commit 144fe22	0.878 AUROC (ProteinGym clinical substitutions, zero-shot, Average_AUC over proteins) unitless · higher Uncertainty: ± 0.003 (type not stated). Labelled a bootstrap standard error. The script that wrote the clinical summary was not read; in the DMS script the same column is the standard error of the difference from the top model, and the top row here prints 0.0, which suggests the same construction. Not verified for this file. Coverage: Not reported scored / Not reported eligible	Evaluation origin not reported · Source checked Methods, coverage and source SIFT: ProteinGym clinical substitutions, zero-shot, average AUC (commit 144fe22) ProteinGym clinical substitutions, zero-shot, average AUC (commit 144fe22) Aggregation: Not reported ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 · benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8, row 'SIFT', column 'Average_AUC'

Source checking is not independent reproduction. Release 2026-10-22-1b7cf027e4f6.

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Release 2026-10-22-1b7cf027e4f6 · Evidence verified: Not verified

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Evaluation procedure

ProteinGym clinical substitutions, zero-shot, average AUC (commit 144fe22)

Configuration: SIFT [ProteinGym 144fe22 clinical summary]
Protocol: ProteinGym clinical substitutions, zero-shot, average AUC (commit 144fe22)
Dataset subset: ProteinGym clinical substitution benchmark at commit 144fe22

origin: Evaluation origin not reported
configuration: Not reported
protocol id: vep-lit-20261014-protocol-proteingym-clinical-zero-shot-substitutions-auc-144fe22
dataset version: 144fe22b07dfaeec2b366f2346203a9838a55b4c
split: Not reported
population: Not reported
inputs: ProteinGym label 'SIFT', model type 'Clinical Predictor'
adaptation: Zero-shot
metric implementation: Not reported
aggregation: Not reported
budget: Not reported

Metadata review: source checked. Unreported conditions prevent automatic comparisons.

Reproduction

Split: Not reported
Adaptation: Zero-shot
Scoring implementation: Not reported

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Evidence

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Evidence table

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18 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-22-1b7cf027e4f6
Property and statement	Original source and location	Review and provenance
Comparison: adaptation Zero-shot Context-only references	ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 Original source ↗ benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8 Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c Retrieved: 2026-10-14T13:39:33Z	not individually reviewed No individual claim review recorded unreported Audit details Field: `attributes.comparison.adaptation` Source artifact SHA-256: `fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Comparison: aggregation Not reported Context-only references	ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 Original source ↗ benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8 Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c Retrieved: 2026-10-14T13:39:33Z	missing or unspecified No individual claim review recorded unreported Audit details Field: `attributes.comparison.aggregation` Source artifact SHA-256: `fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Comparison: budget Not reported Context-only references	ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 Original source ↗ benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8 Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c Retrieved: 2026-10-14T13:39:33Z	missing or unspecified No individual claim review recorded unreported Audit details Field: `attributes.comparison.budget` Source artifact SHA-256: `fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Comparison: dataset version 144fe22b07dfaeec2b366f2346203a9838a55b4c Context-only references	ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 Original source ↗ benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8 Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c Retrieved: 2026-10-14T13:39:33Z	not individually reviewed No individual claim review recorded unreported Audit details Field: `attributes.comparison.dataset_version` Source artifact SHA-256: `fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Comparison: inputs ProteinGym label 'SIFT', model type 'Clinical Predictor' Context-only references	ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 Original source ↗ benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8 Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c Retrieved: 2026-10-14T13:39:33Z	not individually reviewed No individual claim review recorded unreported Audit details Field: `attributes.comparison.inputs` Source artifact SHA-256: `fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Comparison: metric implementation Not reported Context-only references	ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 Original source ↗ benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8 Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c Retrieved: 2026-10-14T13:39:33Z	missing or unspecified No individual claim review recorded unreported Audit details Field: `attributes.comparison.metric_implementation` Source artifact SHA-256: `fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Comparison: population Not reported Context-only references	ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 Original source ↗ benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8 Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c Retrieved: 2026-10-14T13:39:33Z	missing or unspecified No individual claim review recorded unreported Audit details Field: `attributes.comparison.population` Source artifact SHA-256: `fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Comparison: protocol id vep-lit-20261014-protocol-proteingym-clinical-zero-shot-substitutions-auc-144fe22 Context-only references	ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 Original source ↗ benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8 Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c Retrieved: 2026-10-14T13:39:33Z	not individually reviewed No individual claim review recorded unreported Audit details Field: `attributes.comparison.protocol_id` Source artifact SHA-256: `fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Comparison: split Not reported Context-only references	ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 Original source ↗ benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8 Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c Retrieved: 2026-10-14T13:39:33Z	missing or unspecified No individual claim review recorded unreported Audit details Field: `attributes.comparison.split` Source artifact SHA-256: `fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Input information ProteinGym 'Model type' label: Clinical Predictor Context-only references	ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 Original source ↗ benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8 Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c Retrieved: 2026-10-14T13:39:33Z	not individually reviewed No individual claim review recorded unreported Audit details Field: `attributes.input_information` Source artifact SHA-256: `fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact

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Sources and history

Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

1 source record and release history

ProteinGym clinical zero-shot substitutions AUC summary at commit 144fe22 · Original source · 144fe22b07dfaeec2b366f2346203a9838a55b4c

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Technical metadata and extraction receipts

Stable ID: vep-lit-20261014-eval-pg-czs-proteingym-clinical-sift

areas: proteins-complexes; dna-genomes
contexts: clinical_research
origin: unreported
protocol: ProteinGym clinical substitutions, zero-shot, average AUC (commit 144fe22)
input information: ProteinGym 'Model type' label: Clinical Predictor
comparison: protocol id: vep-lit-20261014-protocol-proteingym-clinical-zero-shot-substitutions-auc-144fe22; dataset version: 144fe22b07dfaeec2b366f2346203a9838a55b4c; split: Not reported; population: Not reported; inputs: ProteinGym label 'SIFT', model type 'Clinical Predictor'; adaptation: Zero-shot; metric implementation: Not reported; aggregation: Not reported; budget: Not reported
source locator: benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv line 8
missing metadata: aggregation: reason: unextracted; note: Clinical scoring script not read; budget: reason: unreported; metric implementation: reason: unextracted; note: Clinical scoring script not read; split: reason: inapplicable
review: reviewer: claude; reviewer note: Claude review agent; no human review claimed. Independent Claude (Opus 5.5) review agent, separate from the extraction agent that built this batch. Automated review only. Transcription, not reproduction.; reviewed at: 2026-10-14T15:30:00Z; artifact sha256: fbe453d1aaa6c30a1d0adf610f7fc23c36044a8e2548b178d316777383f8fe93; retrieval url: https://raw.githubusercontent.com/OATML-Markslab/ProteinGym/144fe22b07dfaeec2b366f2346203a9838a55b4c/benchmarks/clinical_zero_shot/substitutions/AUC/Summary_performance_clinical_substitutions_AUC.csv; method: source-hash-verification; deterministic-table-parse; scope-review; method note: Links, origin and comparison fields checked against the source and the linked protocol; results checked by review/check_values.py.; note: Origin set to unreported in review: ProteinGym computed the metric with its own scripts, but the summary file does not say who generated each model's scores (the README says new baselines are added with scores supplied by the requester, and others are scored by the maintainers), and most models are not by the ProteinGym authors. author_reported would wrongly mark most rows as developer-reported; paper_compilation would wrongly mark them as copied from earlier papers.

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