Result

Specificity of NTv3 650M Post (Alavi 2026) on OPA1 LOVD evaluation sets (49 splicing, 79 benign)

74 (93.7%) Specificity

Methods

Tested configuration: NTv3 650M Post (Alavi 2026)
Protocol: Splice-defect classification of OPA1 variants with thresholds tuned on the same sets (Alavi Table III, evaluation sets)
Dataset: OPA1 LOVD evaluation sets (49 splicing, 79 benign)
Procedure: Splice-defect classification of OPA1 variants with thresholds tuned on the same sets (Alavi Table III, evaluation sets)
Evaluation: NTv3 650M Post on OPA1 LOVD evaluation sets (49 splicing, 79 benign)
Coverage: Not reported scored / Not reported eligible
Uncertainty: Not reported by the source
Evidence: Independent external evaluation · source checkedProbing Genomic Foundation Models with Splice-Variant Perturbations (Alavi, bioRxiv 2026) · Table III, row 'NTV3 650M POST', column 'Specificity' (PDF page 6 of 11)

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

Reproduction

Split: No split
Adaptation: zero-shot scores with thresholds grid-searched on the OPA1 evaluation sets
Scoring implementation: Equations 1 to 5 (type I error, type II error, accuracy, specificity, sensitivity); PPV

No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.

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

Source checking verifies the cited claim or transcription. It does not establish 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.

1 evidence row 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
Reported result 74 (93.7%) Individual claims	Probing Genomic Foundation Models with Splice-Variant Perturbations (Alavi, bioRxiv 2026) Original source ↗ Table III, row 'NTV3 650M POST', column 'Specificity' (PDF page 6 of 11) Version: bioRxiv preprint version 1, posted 2026-10-09; full-text PDF (11 pages) Retrieved: 2026-10-11T21:42:49Z	source checked ["pdf-text-parse","independent-cell-check","automated-source-review"] · 2026-10-12 independent paper Audit details Checked by reviewer-scnv against the pinned source; verdict in docs/reviews/use-cases/splicing-cnv-use-cases-2026-10-12.md and in this batch's review.md. Field: `attributes.printed_value` Source artifact SHA-256: `e11f4bd8818992a831cb2829d934287c2587b108881c9785c2ef5c8cdc730004` Hash scope: SHA-256 of one retrieval of the bioRxiv PDF. bioRxiv stamps the PDF when serving it (ModDate and the second document ID), so later retrievals differ. A reviewer retrieval on 2026-10-12 of the same length (1,823,372 bytes) had SHA-256 e22491e217c7c158528668b38bcb8b9855b89617b807c60b740795a204c84b0a and ModDate D:20261011221204-07'00'. All 168 Table III and IV cells in that copy match the stored results. Inspected artifact Extraction artifact SHA-256: `e11f4bd8818992a831cb2829d934287c2587b108881c9785c2ef5c8cdc730004` Extraction artifact

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Sources and history

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

1 source record and release history

Probing Genomic Foundation Models with Splice-Variant Perturbations (Alavi, bioRxiv 2026) · Original source · bioRxiv preprint version 1, posted 2026-10-09; full-text PDF (11 pages)

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Technical metadata and extraction receipts

Stable ID: rna-splicing-20261011-alavi2026-result-opa1-evaluation-ntv3-650m-post-specificity

metric: specificity
metric direction: higher
unit: percent
printed value: 74 (93.7%)
source locator: Table III, row 'NTV3 650M POST', column 'Specificity' (PDF page 6 of 11)
review: method: pdf-text-parse; independent-cell-check; automated-source-review; reviewer: claude; reviewer note: Independent Claude review agent reviewer-scnv; did not extract this batch; no human review claimed; date: 2026-10-12; artifact sha256: e11f4bd8818992a831cb2829d934287c2587b108881c9785c2ef5c8cdc730004; retrieval url: https://www.biorxiv.org/content/10.64898/2026.10.02.756289v1.full.pdf; method note: pdftotext -layout (poppler 26.08.0) on the pinned PDF; value rows found by token pattern, 12 rows per table and row-label fragments between rows asserted; printed cell text kept exactly; bracketed percentages checked against counts.; note: Checked by reviewer-scnv against the pinned source; verdict in docs/reviews/use-cases/splicing-cnv-use-cases-2026-10-12.md and in this batch's review.md.
numeric value: 93.7
unit detail: Cell prints the count of true negatives with the percentage in brackets; numeric_value is the percentage
missing metadata: uncertainty: reason: unreported

Related records

evaluation: NTv3 650M Post on OPA1 LOVD evaluation sets (49 splicing, 79 benign)

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