Dataset

Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)

Perturb-seq dataset processed with cell-gears v0.0.1 and split by perturbation as in the GEARS publication.

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Release 2026-10-10-7fcc3e48a123 · Evidence verified: Not verified

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Evaluation results

15 evaluations · 88 results. Different protocols are not a single leaderboard.

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Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: EN_go (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.978 pearson-correlation unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_go on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell C51, row 'Replogle_RPE1 / EN_go', column 'Pearson'
Configuration: EN_go (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.919 pearson-correlation unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_go on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell D51, row 'Replogle_RPE1 / EN_go', column 'Pearson DE'
Configuration: EN_go (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.638 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_go on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell E51, row 'Replogle_RPE1 / EN_go', column 'Pearson Delta'
Configuration: EN_go (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.669 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_go on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell F51, row 'Replogle_RPE1 / EN_go', column 'Pearson Delta DE'
Configuration: EN_go (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.673 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_go on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell H51, row 'Replogle_RPE1 / EN_go', column 'Pearson Delta DE without KOd gene'
Configuration: EN_go (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.74 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_go on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell G51, row 'Replogle_RPE1 / EN_go', column 'Pearson Delta DE (based on Wilcoxon)'
Configuration: EN_scElmo (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.976 pearson-correlation unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scElmo on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell C52, row 'Replogle_RPE1 / EN_scElmo', column 'Pearson'
Configuration: EN_scElmo (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.92 pearson-correlation unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scElmo on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell D52, row 'Replogle_RPE1 / EN_scElmo', column 'Pearson DE'
Configuration: EN_scElmo (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.628 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scElmo on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell E52, row 'Replogle_RPE1 / EN_scElmo', column 'Pearson Delta'
Configuration: EN_scElmo (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.64 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scElmo on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell F52, row 'Replogle_RPE1 / EN_scElmo', column 'Pearson Delta DE'
Configuration: EN_scElmo (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.64 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scElmo on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell H52, row 'Replogle_RPE1 / EN_scElmo', column 'Pearson Delta DE without KOd gene'
Configuration: EN_scElmo (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.716 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scElmo on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell G52, row 'Replogle_RPE1 / EN_scElmo', column 'Pearson Delta DE (based on Wilcoxon)'
Configuration: EN_scFoundation (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.976 pearson-correlation unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scFoundation on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell C53, row 'Replogle_RPE1 / EN_scFoundation', column 'Pearson'
Configuration: EN_scFoundation (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.92 pearson-correlation unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scFoundation on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell D53, row 'Replogle_RPE1 / EN_scFoundation', column 'Pearson DE'
Configuration: EN_scFoundation (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.628 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scFoundation on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell E53, row 'Replogle_RPE1 / EN_scFoundation', column 'Pearson Delta'
Configuration: EN_scFoundation (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.64 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scFoundation on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell F53, row 'Replogle_RPE1 / EN_scFoundation', column 'Pearson Delta DE'
Configuration: EN_scFoundation (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.64 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scFoundation on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell H53, row 'Replogle_RPE1 / EN_scFoundation', column 'Pearson Delta DE without KOd gene'
Configuration: EN_scFoundation (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.716 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scFoundation on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell G53, row 'Replogle_RPE1 / EN_scFoundation', column 'Pearson Delta DE (based on Wilcoxon)'
Configuration: EN_scGPT (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.976 pearson-correlation unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scGPT on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell C54, row 'Replogle_RPE1 / EN_scGPT', column 'Pearson'
Configuration: EN_scGPT (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.92 pearson-correlation unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scGPT on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell D54, row 'Replogle_RPE1 / EN_scGPT', column 'Pearson DE'
Configuration: EN_scGPT (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.629 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scGPT on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell E54, row 'Replogle_RPE1 / EN_scGPT', column 'Pearson Delta'
Configuration: EN_scGPT (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.641 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scGPT on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell F54, row 'Replogle_RPE1 / EN_scGPT', column 'Pearson Delta DE'
Configuration: EN_scGPT (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.641 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scGPT on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell H54, row 'Replogle_RPE1 / EN_scGPT', column 'Pearson Delta DE without KOd gene'
Configuration: EN_scGPT (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.717 pearson-delta unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EN_scGPT on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell G54, row 'Replogle_RPE1 / EN_scGPT', column 'Pearson Delta DE (based on Wilcoxon)'
Configuration: KNN_go (Csendes et al. 2025)	Protocol: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi: unseen-perturbation expression prediction (Csendes et al. 2025 Supplementary Table 2) Dataset: Replogle et al. 2022 genome-wide Perturb-seq subset, RPE1 CRISPRi (GEARS processing, Csendes et al. 2025)	0.977 pearson-correlation unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source KNN_go on Replogle_RPE1 (Csendes et al. 2025) perturbation-response-20261009-protocol-csendes2025-replogle-rpe1-pex Aggregation: Not reported Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Supplementary Table 2, cell C55, row 'Replogle_RPE1 / KNN_go', column 'Pearson'

Source checking is not independent reproduction. Release 2026-10-10-7fcc3e48a123.

Dataset and evaluation context

A dataset supplies biological observations. The evaluation protocol defines how those observations are split, used and scored.

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.

14 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
attributes.denominator 386 Context-only references	Benchmarking foundation cell models for post-perturbation RNA-seq prediction Original source ↗ Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML Retrieved: 2026-10-09T20:58:48Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.denominator` Source artifact SHA-256: `b59088e4169385c602d0b7a51253d7c1131688666e64e95c06fb54950a514c19` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.denominator 386 Context-only references	Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) Original source ↗ Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 12864_2025_11600_MOESM4_ESM.xlsx from the Europe PMC supplementary bundle (hash is of the workbook; the bundle zip is rebuilt per request) Retrieved: 2026-10-09T20:58:56Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.denominator` Source artifact SHA-256: `b5bfcb633921a642de077a39fcb015c6d36bc36a52d9c5e9ceca33be483d3261` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.population 162,733 single cells, single-gene CRISPRi; 1042 train, 116 validation and 386 test perturbations (Supplementary Table 1) Context-only references	Benchmarking foundation cell models for post-perturbation RNA-seq prediction Original source ↗ Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML Retrieved: 2026-10-09T20:58:48Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.population` Source artifact SHA-256: `b59088e4169385c602d0b7a51253d7c1131688666e64e95c06fb54950a514c19` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.population 162,733 single cells, single-gene CRISPRi; 1042 train, 116 validation and 386 test perturbations (Supplementary Table 1) Context-only references	Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) Original source ↗ Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 12864_2025_11600_MOESM4_ESM.xlsx from the Europe PMC supplementary bundle (hash is of the workbook; the bundle zip is rebuilt per request) Retrieved: 2026-10-09T20:58:56Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.population` Source artifact SHA-256: `b5bfcb633921a642de077a39fcb015c6d36bc36a52d9c5e9ceca33be483d3261` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.source_locator Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Context-only references	Benchmarking foundation cell models for post-perturbation RNA-seq prediction Original source ↗ Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML Retrieved: 2026-10-09T20:58:48Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.source_locator` Source artifact SHA-256: `b59088e4169385c602d0b7a51253d7c1131688666e64e95c06fb54950a514c19` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.source_locator Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Context-only references	Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) Original source ↗ Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 12864_2025_11600_MOESM4_ESM.xlsx from the Europe PMC supplementary bundle (hash is of the workbook; the bundle zip is rebuilt per request) Retrieved: 2026-10-09T20:58:56Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.source_locator` Source artifact SHA-256: `b5bfcb633921a642de077a39fcb015c6d36bc36a52d9c5e9ceca33be483d3261` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.split Perturbation exclusive: unseen perturbations (or, for Norman, unseen combinations) in the test set Context-only references	Benchmarking foundation cell models for post-perturbation RNA-seq prediction Original source ↗ Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML Retrieved: 2026-10-09T20:58:48Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.split` Source artifact SHA-256: `b59088e4169385c602d0b7a51253d7c1131688666e64e95c06fb54950a514c19` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.split Perturbation exclusive: unseen perturbations (or, for Norman, unseen combinations) in the test set Context-only references	Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) Original source ↗ Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 12864_2025_11600_MOESM4_ESM.xlsx from the Europe PMC supplementary bundle (hash is of the workbook; the bundle zip is rebuilt per request) Retrieved: 2026-10-09T20:58:56Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.split` Source artifact SHA-256: `b5bfcb633921a642de077a39fcb015c6d36bc36a52d9c5e9ceca33be483d3261` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.version cell-gears v0.0.1 processing; GEARS perturbation-exclusive split Context-only references	Benchmarking foundation cell models for post-perturbation RNA-seq prediction Original source ↗ Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML Retrieved: 2026-10-09T20:58:48Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.version` Source artifact SHA-256: `b59088e4169385c602d0b7a51253d7c1131688666e64e95c06fb54950a514c19` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.version cell-gears v0.0.1 processing; GEARS perturbation-exclusive split Context-only references	Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) Original source ↗ Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 12864_2025_11600_MOESM4_ESM.xlsx from the Europe PMC supplementary bundle (hash is of the workbook; the bundle zip is rebuilt per request) Retrieved: 2026-10-09T20:58:56Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.version` Source artifact SHA-256: `b5bfcb633921a642de077a39fcb015c6d36bc36a52d9c5e9ceca33be483d3261` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact

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Benchmarking foundation cell models for post-perturbation RNA-seq prediction · Original source · BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML
Csendes et al. 2025, Supplementary Material 4 (Supplementary Tables 1-3) · Original source · 12864_2025_11600_MOESM4_ESM.xlsx from the Europe PMC supplementary bundle (hash is of the workbook; the bundle zip is rebuilt per request)

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Stable ID: perturbation-response-20261009-data-csendes2025-replogle-rpe1

areas: cells-tissues
contexts: research
version: cell-gears v0.0.1 processing; GEARS perturbation-exclusive split
population: 162,733 single cells, single-gene CRISPRi; 1042 train, 116 validation and 386 test perturbations (Supplementary Table 1)
split: Perturbation exclusive: unseen perturbations (or, for Norman, unseen combinations) in the test set
denominator: 386
source locator: Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 2; Methods 'Benchmark datasets'; Supplementary Table 1 row 'replogle_rpe1'

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