Sensitivity at 98% specificity (training set, post hoc 98% specificity threshold) of Small somatic variant classifier on a 507-gene panel (GRAIL prototype), CCGA substudy 1 on CCGA substudy 1 training set (1,414 analysable participants)
19% (16%–22%) Sensitivity at 98% specificity (training set, post hoc 98% specificity threshold)
Methods
- Tested configuration
- Small somatic variant classifier on a 507-gene panel (GRAIL prototype), CCGA substudy 1
- Protocol
- CCGA substudy 1 training set: cancer signal sensitivity at 98% specificity under 10-fold cross-validation
- Dataset
- CCGA substudy 1 training set (1,414 analysable participants)
- Procedure
- CCGA substudy 1 training set: cancer signal sensitivity at 98% specificity under 10-fold cross-validation
- Evaluation
- SNV on CCGA substudy 1 training set: cancer signal sensitivity at 98% specificity under 10-fold cross-validation
- Coverage
- Not reported scored / Not reported eligible
- Uncertainty
- 95% CI 16 to 22. Clopper-Pearson exact binomial interval (STAR Methods, statistical analysis)
- Evidence
- Author-reported evaluation · source checkedEvaluation of cell-free DNA approaches for multi-cancer early detection · Table 3, row 'SNV', training set, sensitivity and TP/total cancer samples 159/833
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
- 10-fold cross-validation within the training set
- Adaptation
- Trained on the CCGA substudy 1 training set
- Scoring implementation
- Sensitivity at a post hoc 98% specificity threshold; Clopper-Pearson 95% CI
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 19% (16%–22%) Individual claims | Evaluation of cell-free DNA approaches for multi-cancer early detection Table 3, row 'SNV', training set, sensitivity and TP/total cancer samples 159/833 Version: Cancer Cell 40(12):1537-1549.e12, published 2022-12-12; publisher PDF (1-s2.0-S153561082200513X-main.pdf) as deposited by the Francis Crick Institute on figshare, 10.25418/crick.21731870.v1 | source checked ["source-hash-verification","pdf-text-parse","independent-cell-check"] · 2026-10-10 author reported Audit detailsExtracted by deterministic parse of the PDF text layer (pdftotext -layout). Independent review 2026-10-10: value, interval and identity match the source. Field: Source artifact SHA-256: Hash scope: pdftotext -layout text layer, parsed by extract/extract_ctdna_jamshidi.py Extraction artifact SHA-256: |
Sources and history
Release 2026-10-10-cbb3da59bc08 · Record review: source checked
1 source record and release history
- Evaluation of cell-free DNA approaches for multi-cancer early detection · Original source · Cancer Cell 40(12):1537-1549.e12, published 2022-12-12; publisher PDF (1-s2.0-S153561082200513X-main.pdf) as deposited by the Francis Crick Institute on figshare, 10.25418/crick.21731870.v1
Technical metadata and extraction receipts
Stable ID: ctdnajam-20261010-result-training-snv-sensitivity
- metric
- sensitivity-at-98-percent-specificity
- metric qualifier
- training set, post hoc 98% specificity threshold
- metric direction
- higher
- unit
- percent
- printed value
- 19% (16%–22%)
- numeric value
- 19
- source locator
- Table 3, row 'SNV', training set, sensitivity and TP/total cancer samples 159/833
- review
- method: source-hash-verification; pdf-text-parse; independent-cell-check; method note: Re-downloaded the figshare file and matched its SHA-256 and the figshare MD5. Read the text layer with pdftotext and a separate parser. Checked the Table 3 cell, its footnote marks, the TP/total count, metric, qualifier and links, recomputed the percentage from TP/total and recomputed the 95% Clopper-Pearson interval with scipy; both match the printed values.; reviewer: claude; reviewer note: Separate Claude review agent, independent of the extractor; no human review claimed; date: 2026-10-10; artifact sha256: 5159294dd203d511dd437837a34555b276e14e0edf615bcb58bae5d9a1246d9a; retrieval url: https://ndownloader.figshare.com/files/38559380; note: Extracted by deterministic parse of the PDF text layer (pdftotext -layout). Independent review 2026-10-10: value, interval and identity match the source.
- uncertainty
- type: confidence_interval; printed: 16%–22%; lower: 16; upper: 22; level: 0.95; method: analytic; note: Clopper-Pearson exact binomial interval (STAR Methods, statistical analysis); n: 833
- numerator
- 159
- denominator
- 833