Frangieh21 genetic perturbations in melanoma cells; 70% of perturbations in the co-culture condition held out.
15 evaluations · 83 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Biolord* | Protocol: PerturBench v4 covariate transfer from mono-culture to co-culture on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.29 ± 3 × 10 − 2 Perturbench cosine logfc rank fraction · lower Uncertainty: SD 0.03 Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBioLord ∗ on PerturBench v4 frangieh21 lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21 Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 7, row 'BioLord ∗', column 'Cosine LogFC rank' |
| Configuration: Biolord* | Protocol: PerturBench v4 covariate transfer from mono-culture to co-culture on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.12 ± 9 × 10 − 3 Perturbench cosine logfc fraction · higher Uncertainty: SD 0.009 Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBioLord ∗ on PerturBench v4 frangieh21 lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21 Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 7, row 'BioLord ∗', column 'Cosine logFC' |
| Configuration: Biolord* | Protocol: PerturBench v4 covariate transfer from mono-culture to co-culture on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.000 ± 1 × 10 − 4 Recall (DEG recall: fraction of the top 20 ground-truth DEGs (scanpy t-scores against controls) recalled from predicted cells) fraction · higher Uncertainty: SD 0.0001 Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBioLord ∗ on PerturBench v4 frangieh21 lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21 Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 7, row 'BioLord ∗', column 'DEG recall' |
| Configuration: Biolord* | Protocol: PerturBench v4 covariate transfer from mono-culture to co-culture on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.20 ± 3 × 10 − 3 Perturbench energy mmd (PCA space: top 256 principal components fitted on the ground-truth test split) unit-unreported · lower Uncertainty: SD 0.003 Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBioLord ∗ on PerturBench v4 frangieh21 lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21 Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 7, row 'BioLord ∗', column 'MMD PCA' |
| Configuration: Biolord* | Protocol: PerturBench v4 covariate transfer from mono-culture to co-culture on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 1.1 ± 2 × 10 − 2 Perturbench energy mmd (gene expression space) unit-unreported · lower Uncertainty: SD 0.02 Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBioLord ∗ on PerturBench v4 frangieh21 lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21 Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 8, row 'BioLord ∗', column 'MMD' |
| Configuration: Biolord* | Protocol: PerturBench v4 covariate transfer from mono-culture to co-culture on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.21 ± 4 × 10 − 2 Perturbench RMSE rank fraction · lower Uncertainty: SD 0.04 Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBioLord ∗ on PerturBench v4 frangieh21 lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21 Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 8, row 'BioLord ∗', column 'RMSE mean rank' |
| Configuration: Biolord* | Protocol: PerturBench v4 covariate transfer from mono-culture to co-culture on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.027 ± 2 × 10 − 4 Perturbench RMSE of mean unit-unreported · lower Uncertainty: SD 0.0002 Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBioLord ∗ on PerturBench v4 frangieh21 lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21 Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 8, row 'BioLord ∗', column 'RMSE mean' |
| Configuration: CPA* | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 80.4 Perturbench matrix distance unit-unreported · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCPA ∗ on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'CPA ∗', column 'Matrix distance' |
| Configuration: CPA* (noAdv) | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 80.2 Perturbench matrix distance unit-unreported · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceCPA ∗ (noAdv) on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'CPA ∗ (noAdv)', column 'Matrix distance' |
| Configuration: CPA* (noAdv) | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.156 Perturbench RMSE rank fraction · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceCPA ∗ (noAdv) on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'CPA ∗ (noAdv)', column 'RMSE mean rank' |
| Configuration: CPA* (noAdv) | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.024 Perturbench RMSE of mean unit-unreported · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceCPA ∗ (noAdv) on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'CPA ∗ (noAdv)', column 'RMSE mean' |
| Configuration: CPA* (noAdv) | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.48 Perturbench RMSE transposed rank fraction · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceCPA ∗ (noAdv) on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'CPA ∗ (noAdv)', column 'RMSE mean transposed-rank' |
| Configuration: CPA* | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.236 Perturbench RMSE rank fraction · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCPA ∗ on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'CPA ∗', column 'RMSE mean rank' |
| Configuration: CPA* | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.024 Perturbench RMSE of mean unit-unreported · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCPA ∗ on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'CPA ∗', column 'RMSE mean' |
| Configuration: CPA* | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.484 Perturbench RMSE transposed rank fraction · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCPA ∗ on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'CPA ∗', column 'RMSE mean transposed-rank' |
| Configuration: LA | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 65.3 Perturbench matrix distance unit-unreported · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceLA on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'LA', column 'Matrix distance' |
| Configuration: LA | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.127 Perturbench RMSE rank fraction · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceLA on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'LA', column 'RMSE mean rank' |
| Configuration: LA | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.023 Perturbench RMSE of mean unit-unreported · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceLA on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'LA', column 'RMSE mean' |
| Configuration: LA | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.413 Perturbench RMSE transposed rank fraction · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceLA on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'LA', column 'RMSE mean transposed-rank' |
| Configuration: SAMS-VAE* | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 81 Perturbench matrix distance unit-unreported · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceSAMS-VAE ∗ on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'SAMS-VAE ∗', column 'Matrix distance' |
| Configuration: SAMS-VAE* | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.383 Perturbench RMSE rank fraction · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceSAMS-VAE ∗ on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'SAMS-VAE ∗', column 'RMSE mean rank' |
| Configuration: SAMS-VAE* | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.024 Perturbench RMSE of mean unit-unreported · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceSAMS-VAE ∗ on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'SAMS-VAE ∗', column 'RMSE mean' |
| Configuration: SAMS-VAE* | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.491 Perturbench RMSE transposed rank fraction · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceSAMS-VAE ∗ on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'SAMS-VAE ∗', column 'RMSE mean transposed-rank' |
| Configuration: SAMS-VAE* (S) | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 54.5 Perturbench matrix distance unit-unreported · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceSAMS-VAE ∗ (S) on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'SAMS-VAE ∗ (S)', column 'Matrix distance' |
| Configuration: SAMS-VAE* (S) | Protocol: PerturBench v4 mode-collapse diagnostics on Frangieh21 Dataset subset: Frangieh21 (PerturBench v4 co-culture split) | 0.16 Perturbench RMSE rank fraction · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceSAMS-VAE ∗ (S) on PerturBench v4 frangieh21-collapse lit-cells-networks-20261011-perturbench-v4-protocol-frangieh21-mode-collapse Aggregation: Not reported PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) · Table 13, row 'SAMS-VAE ∗ (S)', column 'RMSE mean rank' |
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| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Source location Table 1; Table 7 caption; Appendix D.4 'Frangieh21 splits' Context-only references | PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) Table 1; Table 7 caption; Appendix D.4 'Frangieh21 splits' Version: arXiv 2408.10609v4, posted 2025-10-24 (NeurIPS 2025 Datasets and Benchmarks Track version) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact bytes of the arXiv HTML rendering of v4 as retrieved; arXiv may regenerate HTML, so the hash describes this retrieval. |
| Split Frangieh21 genetic perturbations in melanoma cells; 70% of perturbations in the co-culture condition held out. Context-only references | PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) Table 1; Table 7 caption; Appendix D.4 'Frangieh21 splits' Version: arXiv 2408.10609v4, posted 2025-10-24 (NeurIPS 2025 Datasets and Benchmarks Track version) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact bytes of the arXiv HTML rendering of v4 as retrieved; arXiv may regenerate HTML, so the hash describes this retrieval. |
| Description Frangieh21 genetic perturbations in melanoma cells; 70% of perturbations in the co-culture condition held out. Context-only references | PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) Table 1; Table 7 caption; Appendix D.4 'Frangieh21 splits' Version: arXiv 2408.10609v4, posted 2025-10-24 (NeurIPS 2025 Datasets and Benchmarks Track version) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact bytes of the arXiv HTML rendering of v4 as retrieved; arXiv may regenerate HTML, so the hash describes this retrieval. |
| Name Frangieh21 (PerturBench v4 co-culture split) Context-only references | PerturBench: Benchmarking Machine Learning Models for Cellular Perturbation Analysis (arXiv v4) Table 1; Table 7 caption; Appendix D.4 'Frangieh21 splits' Version: arXiv 2408.10609v4, posted 2025-10-24 (NeurIPS 2025 Datasets and Benchmarks Track version) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact bytes of the arXiv HTML rendering of v4 as retrieved; arXiv may regenerate HTML, so the hash describes this retrieval. |
Release 2026-10-23-5347695500ed · Record review: source checked
Stable ID: lit-cells-networks-20261011-perturbench-v4-data-frangieh21