0.67 precision
chen2020-candra-viability-median precision (cell viability drivers versus neutral, median-score threshold)
- Tested configuration
- CanDrA (Chen et al. 2020)
- Protocol
- Cell viability drivers versus neutral, median-score threshold (Chen et al. 2020 Additional file 21)
- Dataset
- Missense mutations with Ba/F3 and MCF10A cell viability calls (published and new)
- Procedure
- somatic-oncogenicity-20261009-protocol-chen2020-viability-median
- Evaluation
- CanDrA on cell viability drivers versus neutral, median-score threshold (Chen et al. 2020)
- Coverage
- Not reported scored / Not reported eligible
- Uncertainty
- Not yet extracted: Printed as 'mean (lower-upper)' under the column header '(±2σ)': per Methods, the mean and two standard deviations over 100 random draws. That is not a confidence interval, and the schema's standard_deviation type would need a standard deviation derived from rounded bounds, so no structured uncertainty is recorded. The printed range is kept in printed_source_cell; every range is symmetric about the mean to rounding.
- Evidence
- Author-reported evaluation · source checkedComprehensive assessment of computational algorithms in predicting cancer driver mutations; Chen et al. 2020, Additional file 21: Performance metrics of 33 algorithms, median-score threshold, benchmark 5 (cell viability) · Additional file 21 (sheet 'Additional_file_21'), E5; Algorithm 'CanDrA'; column 'PPV (±2σ)'
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
- 100 random draws of 400 positives and 400 negatives
- Adaptation
- Not reported
- Scoring implementation
- reportROC (R)
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
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Reported result 0.67 Individual claims | Comprehensive assessment of computational algorithms in predicting cancer driver mutations Additional file 21 (sheet 'Additional_file_21'), E5; Algorithm 'CanDrA'; column 'PPV (±2σ)' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 21:43, published 2020-02-20; PMC7033911 full-text XML | source checked ["source-hash-verification","deterministic-table-parse","independent-cell-check"] · 2026-10-09T21:06:32Z author reported Audit detailsExtracted by deterministic parse of the pinned XLSX cell XML (extract/extract_somatic_oncogenicity.py with extract/rawxlsx.py), with the sheet name, column headers and algorithm labels asserted. Each cell prints 'mean (lower-upper)'; printed_value is the mean as printed and the bracketed range is kept in uncertainty. Independent review 2026-10-09: value, metric, unit, direction, locator and configuration and protocol identity match the source. Two Chen et al. authors co-developed CanDrA; the evaluation origin is author_reported. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Extraction artifact SHA-256: |
| Reported result 0.67 Individual claims | Chen et al. 2020, Additional file 21: Performance metrics of 33 algorithms, median-score threshold, benchmark 5 (cell viability) Additional file 21 (sheet 'Additional_file_21'), E5; Algorithm 'CanDrA'; column 'PPV (±2σ)' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2020_1954_MOESM21_ESM.xlsx | source checked ["source-hash-verification","deterministic-table-parse","independent-cell-check"] · 2026-10-09T21:06:32Z author reported Audit detailsExtracted by deterministic parse of the pinned XLSX cell XML (extract/extract_somatic_oncogenicity.py with extract/rawxlsx.py), with the sheet name, column headers and algorithm labels asserted. Each cell prints 'mean (lower-upper)'; printed_value is the mean as printed and the bracketed range is kept in uncertainty. Independent review 2026-10-09: value, metric, unit, direction, locator and configuration and protocol identity match the source. Two Chen et al. authors co-developed CanDrA; the evaluation origin is author_reported. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Extraction artifact SHA-256: |
Sources and history
Release 2026-10-10-6e93f504adfc · Record review: source checked
2 source records and release history
- Comprehensive assessment of computational algorithms in predicting cancer driver mutations · Original source · Genome Biology 21:43, published 2020-02-20; PMC7033911 full-text XML
- Chen et al. 2020, Additional file 21: Performance metrics of 33 algorithms, median-score threshold, benchmark 5 (cell viability) · Original source · 13059_2020_1954_MOESM21_ESM.xlsx
Technical metadata and extraction receipts
Stable ID: somatic-oncogenicity-20261009-result-chen2020-candra-viability-median-precision
- metric
- precision
- metric direction
- higher
- unit
- fraction
- metric qualifier
- cell viability drivers versus neutral, median-score threshold
- printed value
- 0.67
- numeric value
- 0.67
- source locator
- Additional file 21 (sheet 'Additional_file_21'), E5; Algorithm 'CanDrA'; column 'PPV (±2σ)'
- review
- method: source-hash-verification; deterministic-table-parse; independent-cell-check; method note: Re-downloaded the workbook from the publisher URL and matched its SHA-256. Read the cell XML with a separate stdlib parser written for this review (the extractor's scripts were not imported or run), asserting the single sheet, the six headers and the row count, and parsed each 'mean (lower-upper)' cell. Checked printed and numeric value (the mean), the printed range, metric from the column header, unit, direction, cell locator, and the linked evaluation's configuration (algorithm label) and protocol (file). Default-category algorithm labels were checked against Additional file 1.; reviewer: claude; reviewer note: Separate Claude review agent, independent of the extractor; no human review claimed; reviewed at: 2026-10-09T21:06:32Z; artifact sha256: 47c4d461085334b017994d1846ceb06d6e44e7be369ecd2ecfe00620d6a0f7f5; retrieval url: https://static-content.springer.com/esm/art%3A10.1186%2Fs13059-020-01954-z/MediaObjects/13059_2020_1954_MOESM21_ESM.xlsx; note: Extracted by deterministic parse of the pinned XLSX cell XML (extract/extract_somatic_oncogenicity.py with extract/rawxlsx.py), with the sheet name, column headers and algorithm labels asserted. Each cell prints 'mean (lower-upper)'; printed_value is the mean as printed and the bracketed range is kept in uncertainty. Independent review 2026-10-09: value, metric, unit, direction, locator and configuration and protocol identity match the source. Two Chen et al. authors co-developed CanDrA; the evaluation origin is author_reported.
- printed source cell
- 0.67 (0.65-0.70)
- missing metadata
- uncertainty: reason: unextracted; note: Printed as 'mean (lower-upper)' under the column header '(±2σ)': per Methods, the mean and two standard deviations over 100 random draws. That is not a confidence interval, and the schema's standard_deviation type would need a standard deviation derived from rounded bounds, so no structured uncertainty is recorded. The printed range is kept in printed_source_cell; every range is symmetric about the mean to rounding.