Result

0.489 Mean |Spearman rho|

ESM-2 · Mean |Spearman rho| · ProteinShake VEP datasets

Tested configuration: ESM-2
Task: Zero-shot variant effect prediction
Dataset: ProteinShake VEP datasets
Procedure: Zero-shot VEP; paper averages absolute Spearman correlations.
Evaluation: ESM-2: Zero-shot variant effect prediction
Coverage: scored: unreported; eligible: unreported
Uncertainty: Not reported
Evidence: Independent external evaluation · source checkedEndowing protein language models with structural knowledge · Table 2, ESM-2 row, Zero-shot VEP Mean |ρ| column

A source-checked result verifies the numerical transcription, not every model or protocol detail. Evaluation metadata: needs review. Source checked does not mean independently reproduced.

Reproduction

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Adaptation: Not reported
Scoring implementation: Not reported

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Access requirements and official instructions: Zero-shot variant effect prediction

Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.

Evidence

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Evidence table

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1 evidence row matching the loaded filters

Claims, original sources and review scope · Release 2026-09-29-06401fd5b220
Property and statement	Original source and location	Review and provenance
attributes.printed_value 0.489 Individual claims	Endowing protein language models with structural knowledge Original source ↗ Table 2, ESM-2 row, Zero-shot VEP Mean \|ρ\| column Version: PMC12603367.1 Retrieved: 2026-09-16T10:41:16.527633+00:00	source checked independent ai table review · 2026-09-16T10:41:16.528656+00:00 independent paper Audit details Zero-shot VEP is the last metric group; selected Mean absolute rho, not GO/EC/binding-site metrics. This verifies the central score at its source location, not every metadata field or an experimental reproduction. Field: `attributes.printed_value` Claim: claim-lit-024 Source artifact SHA-256: `c21ad593de589a7188ca86a8b7ce617e301d48dd939ecc7da03efb22cbe8d7a3` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact Extraction artifact SHA-256: `c21ad593de589a7188ca86a8b7ce617e301d48dd939ecc7da03efb22cbe8d7a3` Extraction artifact

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Sources and history

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Release 2026-09-29-06401fd5b220 · Record review: source checked

1 source records and release history

Endowing protein language models with structural knowledge · Original source · PMC12603367.1

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Technical metadata and extraction receipts

Stable ID: lit-024

areas: proteins-complexes
tasks: Zero-shot variant effect prediction
printed value: 0.489
numeric value: 0.489
metric: Mean |Spearman rho|
metric direction: unknown
unit: unitless
uncertainty: Not reported
source locator: Table 2, ESM-2 row, Zero-shot VEP Mean |ρ| column
review: method: independent_ai_table_review; reviewer: Codex omics research agent; independent source-table review, not human review; reviewed at: 2026-09-16T10:41:16.528656+00:00; notes: Zero-shot VEP is the last metric group; selected Mean absolute rho, not GO/EC/binding-site metrics. This verifies the central score at its source location, not every metadata field or an experimental reproduction.; evidence: {"table_xml_id": "btaf582-T2", "row_cells": ["ESM-2", "0.648", "0.858", "0.698", "0.431", "0.791", "0.489"], "selected_cell_zero_based": 6, "selected_cell_xml": "<td rowspan=\"1\" colspan=\"1\">0.489</td>", "caption": "Comparison of PST and ESM-2 on ProteinShake tasks and VEP datasets.a"}; artifact sha256: c21ad593de589a7188ca86a8b7ce617e301d48dd939ecc7da03efb22cbe8d7a3; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC12603367/fullTextXML
legacy id: lit-024
legacy row: id: lit-024; paper id: pst-2025; domain id: proteins-complexes; task: Zero-shot variant effect prediction; model: ESM-2; model version: Not reported; dataset: ProteinShake VEP datasets; dataset version: Not reported; split: Not reported; metric: Mean |Spearman rho|; value: 0.489; unit: unitless; uncertainty: Not reported; protocol: Zero-shot VEP; paper averages absolute Spearman correlations.; source locator: Table 2, ESM-2 row, Zero-shot VEP Mean |ρ| column; source url: https://pmc.ncbi.nlm.nih.gov/articles/PMC12603367/; evaluation origin: independent_paper; reviewed utc: 2026-09-15T23:25:00Z
missing metadata: model version: not_reported_in_legacy_extract; dataset version: not_reported_in_legacy_extract; split: not_reported_in_legacy_extract; uncertainty: not_reported_in_legacy_extract

Related records

evaluation: ESM-2: Zero-shot variant effect prediction
subject: Reported Mean |Spearman rho| for ESM-2

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