F1 (delta score for each variant's effect type; threshold optimised per gene and algorithm for maximum accuracy (upper bound)) of OpenSpliceAI (Fortier et al. 2026) on Riepe et al. functional splice assay variants (213 variants, ABCA4 and MYBPC3)
0.741 F1 (delta score for each variant's effect type; threshold optimised per gene and algorithm for maximum accuracy (upper bound))
Methods
- Tested configuration
- OpenSpliceAI (Fortier et al. 2026)
- Protocol
- Splice-altering variant classification, Riepe et al. functional splice assay variants (213 variants, ABCA4 and MYBPC3) (Fortier et al. Table 2)
- Dataset
- Riepe et al. functional splice assay variants (213 variants, ABCA4 and MYBPC3)
- Procedure
- Splice-altering variant classification, Riepe et al. functional splice assay variants (213 variants, ABCA4 and MYBPC3) (Fortier et al. Table 2)
- Evaluation
- OpenSpliceAI on the Riepe et al. functional splice assay variants (213 variants, ABCA4 and MYBPC3)
- Coverage
- Not reported scored / Not reported eligible
- Uncertainty
- Not reported by the source
- Evidence
- Independent external evaluation · source checkedAnalyzing the performance of deep learning splice prediction algorithms (Fortier, Rudy and Scherer, PLOS One 2026) · Table 2, row 'OpenSpliceAI', column 'F1'
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
- Whole set
- Adaptation
- delta score for each variant's effect type; threshold optimised per gene and algorithm for maximum accuracy (upper bound)
- Scoring implementation
- Sensitivity, specificity, F1 = 2TP/(2TP+FP+FN), balanced accuracy = mean of sensitivity and specificity (Equations 1 to 4)
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
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Reported result 0.741 Individual claims | Analyzing the performance of deep learning splice prediction algorithms (Fortier, Rudy and Scherer, PLOS One 2026) Table 2, row 'OpenSpliceAI', column 'F1' Version: PLOS One 21(5):e0348885, published 2026-05-13; PMC13170886 full-text XML | source checked ["source-hash-verification","independent-cell-check","automated-source-review"] · 2026-10-12 independent paper Audit detailsChecked 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Extraction artifact SHA-256: |
Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
1 source record and release history
- Analyzing the performance of deep learning splice prediction algorithms (Fortier, Rudy and Scherer, PLOS One 2026) · Original source · PLOS One 21(5):e0348885, published 2026-05-13; PMC13170886 full-text XML
Technical metadata and extraction receipts
Stable ID: rna-splicing-20261011-fortier2026-result-riepe-openspliceai-f1-score
- metric
- f1-score
- metric direction
- higher
- unit
- fraction
- printed value
- 0.741
- source locator
- Table 2, row 'OpenSpliceAI', column 'F1'
- review
- method: source-hash-verification; 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: dffe74cee7782cbdfdbc9423cf00f0a846b3d720b90b10e9732d6f768c485176; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC13170886/fullTextXML; method note: Parsed the pinned PMC13170886 article XML (table-wrap elements) with a stdlib reader; caption, header row and the four row labels asserted for each table; printed cell text kept exactly.; 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
- 0.741
- metric qualifier
- delta score for each variant's effect type; threshold optimised per gene and algorithm for maximum accuracy (upper bound)
- missing metadata
- uncertainty: reason: unreported