Result

0 recall

smith2023-fas-exon6-mpsa-s-cap-all recall

Tested configuration: S-Cap (Smith and Kitzman 2023)
Protocol: FAS exon 6 saturation MPSA: transcriptome-normalised sensitivity at a 10% background call rate (Smith and Kitzman Table S2)
Dataset: FAS exon 6 saturation MPSA (Smith and Kitzman benchmark set)
Procedure: splicing-follow-up-20261009-protocol-smith2023-fas-exon6-mpsa-tn10
Evaluation: S-Cap on FAS exon 6 saturation MPSA
Coverage: Not reported scored / Not reported eligible
Uncertainty: Not reported by the source
Evidence: Independent external evaluation · source checkedBenchmarking splice variant prediction algorithms using massively parallel splicing assays; Smith and Kitzman 2023, Additional file 3 (Table S2) · Additional file 3 sheet 'Sensitivity 10% SDV', cell C3; row S-Cap, column FAS

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: None; published models or precomputed scores
Scoring implementation: Sensitivity at the tool threshold calling 10% of the 500,000-SNV background set

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.

2 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-10-7fcc3e48a123
Property and statement	Original source and location	Review and provenance
Reported result 0 Individual claims	Benchmarking splice variant prediction algorithms using massively parallel splicing assays Original source ↗ Additional file 3 sheet 'Sensitivity 10% SDV', cell C3; row S-Cap, column FAS Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 24:294, published 2023-12-21; PMC10734170 full-text XML Retrieved: 2026-10-09T20:49:26Z	source checked ["source-hash-verification","deterministic-table-parse","independent-cell-check"] · 2026-10-09 independent paper Audit details Deterministic parse of the pinned XLSX cell XML (extract/extract_splicing_follow_up.py) with sheet name, dataset headers and row labels asserted; printed_value is the shortest round-trip decimal of the stored double, raw_xml_value keeps the stored text. Independent review 2026-10-09: value and identity match the source. S-Cap scores only some synonymous variants and variants within 50 bp of a splice site; 61.0% of background variants had no score, so its threshold comes from the scored part of the background. Field: `attributes.printed_value` Source artifact SHA-256: `5aceff067af63ab59400ade7dd7db563a16fc7f4d6db6fa55d5b34689f7a0769` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact Extraction artifact SHA-256: `c5ed8dc1488f87a1aff766c0ed4c8b3faab148259ca6e6f28e729b9a57a700fa` Extraction artifact
Reported result 0 Individual claims	Smith and Kitzman 2023, Additional file 3 (Table S2) Original source ↗ Additional file 3 sheet 'Sensitivity 10% SDV', cell C3; row S-Cap, column FAS Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2023_3144_MOESM3_ESM.xlsx inside the Europe PMC supplementaryFiles zip for PMC10734170 Retrieved: 2026-10-09T20:49:34Z	source checked ["source-hash-verification","deterministic-table-parse","independent-cell-check"] · 2026-10-09 independent paper Audit details Deterministic parse of the pinned XLSX cell XML (extract/extract_splicing_follow_up.py) with sheet name, dataset headers and row labels asserted; printed_value is the shortest round-trip decimal of the stored double, raw_xml_value keeps the stored text. Independent review 2026-10-09: value and identity match the source. S-Cap scores only some synonymous variants and variants within 50 bp of a splice site; 61.0% of background variants had no score, so its threshold comes from the scored part of the background. Field: `attributes.printed_value` Source artifact SHA-256: `c5ed8dc1488f87a1aff766c0ed4c8b3faab148259ca6e6f28e729b9a57a700fa` Hash scope: SHA-256 of the MOESM3 xlsx member (zip SHA-256 e06758da73eda5d4ba9c61361514ed2d84573bf50df5bf8036102389e019d525; Europe PMC assembles the zip per request). Inspected artifact Extraction artifact SHA-256: `c5ed8dc1488f87a1aff766c0ed4c8b3faab148259ca6e6f28e729b9a57a700fa` Extraction artifact

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Sources and history

Release 2026-10-10-7fcc3e48a123 · Record review: source checked

2 source records and release history

Benchmarking splice variant prediction algorithms using massively parallel splicing assays · Original source · Genome Biology 24:294, published 2023-12-21; PMC10734170 full-text XML
Smith and Kitzman 2023, Additional file 3 (Table S2) · Original source · 13059_2023_3144_MOESM3_ESM.xlsx inside the Europe PMC supplementaryFiles zip for PMC10734170

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Technical metadata and extraction receipts

Stable ID: splicing-follow-up-20261009-result-smith2023-fas-exon6-mpsa-s-cap-all

metric: recall
metric direction: higher
unit: fraction
printed value: 0
numeric value: 0
source locator: Additional file 3 sheet 'Sensitivity 10% SDV', cell C3; row S-Cap, column FAS
review: method: source-hash-verification; deterministic-table-parse; independent-cell-check; method note: Re-downloaded the supplementary zip and matched the SHA-256 of member 13059_2023_3144_MOESM3_ESM.xlsx. Read the cell with a separate stdlib OOXML reader written for this review (shared strings, raw cell text; number format General); the extractor's scripts were not imported or run. Built each cell's identity from the dataset header and the tool and variant-class row label, and checked raw text, printed value, numeric value, metric, qualifier, unit, direction and the linked evaluation's configuration, protocol and dataset.; reviewer: claude; reviewer note: Separate Claude review agent, independent of the extractor; no human review claimed; date: 2026-10-09; artifact sha256: c5ed8dc1488f87a1aff766c0ed4c8b3faab148259ca6e6f28e729b9a57a700fa; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC10734170/supplementaryFiles; note: Deterministic parse of the pinned XLSX cell XML (extract/extract_splicing_follow_up.py) with sheet name, dataset headers and row labels asserted; printed_value is the shortest round-trip decimal of the stored double, raw_xml_value keeps the stored text. Independent review 2026-10-09: value and identity match the source. S-Cap scores only some synonymous variants and variants within 50 bp of a splice site; 61.0% of background variants had no score, so its threshold comes from the scored part of the background.
missing metadata: uncertainty: reason: unreported
metric qualifier: transcriptome-normalised threshold calling 10% of background SNVs; all variants
raw xml value: 0

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evaluation: S-Cap on FAS exon 6 saturation MPSA

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