True positives (RUNX1::RUNX1T1 (conventional-positive; AML)) of STAR 2.7.7a and Arriba v2.4.0 high-confidence calls with manual IGV review (Kim et al. 2026) on Samsung Medical Center acute leukaemia bone-marrow whole RNA-seq, 101 patients (2022-2023)
3 True positives (RUNX1::RUNX1T1 (conventional-positive; AML))
Methods
- Tested configuration
- STAR 2.7.7a and Arriba v2.4.0 high-confidence calls with manual IGV review (Kim et al. 2026)
- Protocol
- Acute leukaemia whole RNA-seq fusion detection against conventional diagnostics (Kim et al. 2026)
- Dataset
- Samsung Medical Center acute leukaemia bone-marrow whole RNA-seq, 101 patients (2022-2023)
- Procedure
- Acute leukaemia whole RNA-seq fusion detection against conventional diagnostics (Kim et al. 2026)
- Evaluation
- Arriba v2.4.0 with IGV review against conventional diagnostics in 101 acute leukaemia patients (Kim et al. 2026)
- Coverage
- Not reported scored / Not reported eligible
- Uncertainty
- Not reported by the source
- Evidence
- Independent external evaluation · source checkedDetection of Fusion Genes Using RNA Sequencing in Acute Leukemia · Table 2, section 'Fusion genes detected using conventional diagnostics', row 'RUNX1::RUNX1T1', column 'Number of fusions detected using RNA-seq'
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
- Retrospective cohort
- Adaptation
- Not reported
- Scoring implementation
- Fusion-level agreement with conventional diagnostics
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 3 Individual claims | Detection of Fusion Genes Using RNA Sequencing in Acute Leukemia Table 2, section 'Fusion genes detected using conventional diagnostics', row 'RUNX1::RUNX1T1', column 'Number of fusions detected using RNA-seq' Version: Annals of Laboratory Medicine 46(3), epub 2025-10-16; PMC13071280 full-text XML | source checked ["source-hash-verification","deterministic-table-parse","independent-cell-check"] · 2026-10-11 independent paper Audit detailsExtraction: Parsed table-wrap 'Table 2' of the pinned article XML with extract/extract_fusion_leukaemia.py; header, section and row count asserted, and column sums checked against the 48, 40 and 12 printed in Results. Table 2, section 'Fusion genes detected using conventional diagnostics', row 'RUNX1::RUNX1T1', column 'Number of fusions detected using RNA-seq' Independent review 2026-10-11: value, locator, metric, unit, direction and linked configuration and protocol checked; corrections from the review applied by the extractor as listed in review.md (docs/reviews/use-cases/tumour-rna-fusion-detection-2026-10-11.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
- Detection of Fusion Genes Using RNA Sequencing in Acute Leukemia · Original source · Annals of Laboratory Medicine 46(3), epub 2025-10-16; PMC13071280 full-text XML
Technical metadata and extraction receipts
Stable ID: rna-fusion-leukaemia-20261011-result-runx1-runx1t1-rnaseq
- metric
- true-positive-count
- metric direction
- higher
- unit
- count
- printed value
- 3
- source locator
- Table 2, section 'Fusion genes detected using conventional diagnostics', row 'RUNX1::RUNX1T1', column 'Number of fusions detected using RNA-seq'
- review
- method: source-hash-verification; deterministic-table-parse; independent-cell-check; method note: Independent re-retrieval and hash check; reviewer's own parser compared every table cell; stratified hand check against the rendered table or quoted sentence.; reviewer: claude; reviewer note: Claude research agent reviewer-onc-2, independent of the extractor uc-oncology; no human review claimed; date: 2026-10-11; artifact sha256: 4d3a6d48fc107763bffe18ff7dbcb6ab97b86757e69ff89ae595f3243f30bad1; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC13071280/fullTextXML; note: Extraction: Parsed table-wrap 'Table 2' of the pinned article XML with extract/extract_fusion_leukaemia.py; header, section and row count asserted, and column sums checked against the 48, 40 and 12 printed in Results. Table 2, section 'Fusion genes detected using conventional diagnostics', row 'RUNX1::RUNX1T1', column 'Number of fusions detected using RNA-seq' Independent review 2026-10-11: value, locator, metric, unit, direction and linked configuration and protocol checked; corrections from the review applied by the extractor as listed in review.md (docs/reviews/use-cases/tumour-rna-fusion-detection-2026-10-11.md).
- numeric value
- 3
- metric qualifier
- RUNX1::RUNX1T1 (conventional-positive; AML)
- unit detail
- counted entity: patients with this fusion called by RNA-seq
- missing metadata
- uncertainty: reason: unreported
- printed value basis
- Cell text as printed