GEARS on GEARS Norman2019 CPA-control comparison Pearson DE: Norman2019 perturbation-response Pearson DE
GEARS Norman2019 CPA-control comparison evaluation of GEARS on Norman2019 perturbation-response Pearson DE, scored with Pearson correlation of differential expression.
Evaluation results
1 evaluation · 1 metric rows. Different protocols are not a single leaderboard.
Filter evaluations
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: GEARS | Protocol: GEARS Norman2019 CPA-control comparison Pearson DE: Norman2019 perturbation-response Pearson DE Dataset subset: Norman et al.2019 perturbation data used in GEARS Supplementary Table6 (GEARS Norman2019 CPA-control comparison split) | 0.556 ± 0.030 pearson_delta_expression correlation · higher Uncertainty: type: unreported; reported spread: 0.030; note: Printed ± spread; SD/SE/CI type not established by inspected table caption. Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · source checkedMethods, coverage and sourcePredict post-perturbation expression on Norman2019. MSE compares predicted and true expression; Pearson DE compares predicted versus true change over unperturbed controls (Supplementary Table1). Exact Table6 scoring gene subset and split manifest remain unextracted. Aggregation: Not reported GEARS primary supplement, Table6 · Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE |
Source checking is not independent reproduction. Release 2026-09-23-2b89723c6dd9.
Evaluation procedure
Predict post-perturbation expression on Norman2019. MSE compares predicted and true expression; Pearson DE compares predicted versus true change over unperturbed controls (Supplementary Table1). Exact Table6 scoring gene subset and split manifest remain unextracted.
- Configuration
- GEARS
- Protocol
- GEARS Norman2019 CPA-control comparison Pearson DE: Norman2019 perturbation-response Pearson DE
- Dataset subset
- Norman et al.2019 perturbation data used in GEARS Supplementary Table6 (GEARS Norman2019 CPA-control comparison split)
- origin
- Author-reported evaluation
- configuration
- Not reported
- protocol id
- gears-2023-supp-table6-task-pearson-de
- metric implementation
- Pearson correlation of differential expression
Metadata review: source checked. Unreported conditions prevent automatic comparisons.
Reproduction
- Split
- Not reported
- Adaptation
- Not reported
- Scoring implementation
- Pearson correlation of differential expression
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.
15 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.adaptation Trained perturbation-response models on Norman2019; CPA+KG adds an MLP over one-hop knowledge-graph neighbors (Supplementary Note5). GEARS training hyperparameters are in Supplementary Note22. No Perturb is a no-change control. Context-only references | GEARS primary supplement, Table6 Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Version: 10.1038/s41587-023-01905-6 publisher supplement | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.metric_implementation Pearson correlation of differential expression Context-only references | GEARS primary supplement, Table6 Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Version: 10.1038/s41587-023-01905-6 publisher supplement | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.protocol_id gears-2023-supp-table6-task-pearson-de Context-only references | GEARS primary supplement, Table6 Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Version: 10.1038/s41587-023-01905-6 publisher supplement | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.evaluation_group_id gears-2023-supp-table6-method-gears-gears-2023-supp-table6-dataset-norman-et-al-2019-perturbation-data-used-in-gears-supplementary-table6-evaluation-setup Context-only references | GEARS primary supplement, Table6 Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Version: 10.1038/s41587-023-01905-6 publisher supplement | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.evidence_overlap One source-table comparison with two metrics per evaluated configuration. No Perturb matches Table5; these are not additional independent runs. Context-only references | GEARS primary supplement, Table6 Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Version: 10.1038/s41587-023-01905-6 publisher supplement | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.origin author_reported Context-only references | GEARS primary supplement, Table6 Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Version: 10.1038/s41587-023-01905-6 publisher supplement | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.protocol Predict post-perturbation expression on Norman2019. MSE compares predicted and true expression; Pearson DE compares predicted versus true change over unperturbed controls (Supplementary Table1). Exact Table6 scoring gene subset and split manifest remain unextracted. Context-only references | GEARS primary supplement, Table6 Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Version: 10.1038/s41587-023-01905-6 publisher supplement | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.published_score_reproduction false Context-only references | GEARS primary supplement, Table6 Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Version: 10.1038/s41587-023-01905-6 publisher supplement | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.source_locator Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Context-only references | GEARS primary supplement, Table6 Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Version: 10.1038/s41587-023-01905-6 publisher supplement | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.suite_complete false Context-only references | GEARS primary supplement, Table6 Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE Version: 10.1038/s41587-023-01905-6 publisher supplement | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
View linked audit checks and correction history
Release 2026-09-23-2b89723c6dd9 · Record review: source checked
1 source records and release history
- GEARS primary supplement, Table6 · Original source · 10.1038/s41587-023-01905-6 publisher supplement
Technical metadata and extraction receipts
Stable ID: gears-2023-supp-table6-evaluation-gears-pearson-de
- areas
- cells-spatial-multiomics
- tasks
- Norman2019 perturbation-response Pearson DE
- origin
- author_reported
- protocol
- Predict post-perturbation expression on Norman2019. MSE compares predicted and true expression; Pearson DE compares predicted versus true change over unperturbed controls (Supplementary Table1). Exact Table6 scoring gene subset and split manifest remain unextracted.
- comparison
- protocol id: gears-2023-supp-table6-task-pearson-de; metric implementation: Pearson correlation of differential expression
- missing metadata
- checkpoint revision: unreported; seeds: unreported; budget: unreported; split manifest: unextracted
- source locator
- Supplementary Table6, printed p34 / PDF p35, row GEARS, column Pearson DE
- adaptation
- Trained perturbation-response models on Norman2019; CPA+KG adds an MLP over one-hop knowledge-graph neighbors (Supplementary Note5). GEARS training hyperparameters are in Supplementary Note22. No Perturb is a no-change control.
- evidence overlap
- One source-table comparison with two metrics per evaluated configuration. No Perturb matches Table5; these are not additional independent runs.
- published score reproduction
- false
- suite complete
- false
- evaluation group id
- gears-2023-supp-table6-method-gears-gears-2023-supp-table6-dataset-norman-et-al-2019-perturbation-data-used-in-gears-supplementary-table6-evaluation-setup
Related records
- benchmark: GEARS Norman2019 CPA-control comparison Pearson DE: Norman2019 perturbation-response Pearson DE
- model: GEARS
- dataset: Norman et al.2019 perturbation data used in GEARS Supplementary Table6 (GEARS Norman2019 CPA-control comparison split)
- evaluation: GEARS · GEARS Norman2019 CPA-control comparison Pearson DE · Pearson correlation of differential expression