Public atlas used as reference or query for annotation transfer; labels are the atlas annotations.
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23 evaluations · 46 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Ensemble Geneformer + LangCell (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.814 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer + LangCell: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B18, row 'Geneformer + LangCell', column 'Accuracy@1' |
| Configuration: Ensemble Geneformer + LangCell (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.285 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer + LangCell: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C18, row 'Geneformer + LangCell', column 'Macro-F1' |
| Configuration: Ensemble Geneformer + scCello (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.828 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer + scCello: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B24, row 'Geneformer + scCello', column 'Accuracy@1' |
| Configuration: Ensemble Geneformer + scCello (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.288 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer + scCello: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C24, row 'Geneformer + scCello', column 'Macro-F1' |
| Configuration: Ensemble Geneformer + scFoundation (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.816 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer + scFoundation: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B19, row 'Geneformer + scFoundation', column 'Accuracy@1' |
| Configuration: Ensemble Geneformer + scFoundation (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.281 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer + scFoundation: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C19, row 'Geneformer + scFoundation', column 'Macro-F1' |
| Configuration: Ensemble Geneformer + scGPT (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.816 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer + scGPT: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B20, row 'Geneformer + scGPT', column 'Accuracy@1' |
| Configuration: Ensemble Geneformer + scGPT (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.285 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer + scGPT: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C20, row 'Geneformer + scGPT', column 'Macro-F1' |
| Configuration: Ensemble Geneformer + UCE (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.824 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer + UCE: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B22, row 'Geneformer + UCE', column 'Accuracy@1' |
| Configuration: Ensemble Geneformer + UCE (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.29 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGeneformer + UCE: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C22, row 'Geneformer + UCE', column 'Macro-F1' |
| Configuration: Ensemble LangCell + scCello (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.818 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceLangCell + scCello: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B21, row 'LangCell + scCello', column 'Accuracy@1' |
| Configuration: Ensemble LangCell + scCello (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.277 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceLangCell + scCello: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C21, row 'LangCell + scCello', column 'Macro-F1' |
| Configuration: Ensemble LangCell + scFoundation (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.79 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceLangCell + scFoundation: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B13, row 'LangCell + scFoundation', column 'Accuracy@1' |
| Configuration: Ensemble LangCell + scFoundation (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.266 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceLangCell + scFoundation: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C13, row 'LangCell + scFoundation', column 'Macro-F1' |
| Configuration: Ensemble LangCell + scGPT (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.769 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcescGPT + LangCell: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B11, row 'scGPT + LangCell', column 'Accuracy@1' |
| Configuration: Ensemble LangCell + scGPT (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.253 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcescGPT + LangCell: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C11, row 'scGPT + LangCell', column 'Macro-F1' |
| Configuration: Ensemble LangCell + UCE (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.808 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceUCE + LangCell: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B16, row 'UCE + LangCell', column 'Accuracy@1' |
| Configuration: Ensemble LangCell + UCE (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.275 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceUCE + LangCell: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C16, row 'UCE + LangCell', column 'Macro-F1' |
| Configuration: Ensemble Logit aggregation (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.82 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceLogit aggregation: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B27, row 'Logit aggregation', column 'Accuracy@1' |
| Configuration: Ensemble Logit aggregation (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.285 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceLogit aggregation: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C27, row 'Logit aggregation', column 'Macro-F1' |
| Configuration: Ensemble Majority voting (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.83 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceMajority voting: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B28, row 'Majority voting', column 'Accuracy@1' |
| Configuration: Ensemble Majority voting (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.28 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceMajority voting: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C28, row 'Majority voting', column 'Macro-F1' |
| Configuration: Ensemble scCello + scFoundation (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.827 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcescFoundation + scCello: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B23, row 'scFoundation + scCello', column 'Accuracy@1' |
| Configuration: Ensemble scCello + scFoundation (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.286 macro-f1 fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcescFoundation + scCello: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell C23, row 'scFoundation + scCello', column 'Macro-F1' |
| Configuration: Ensemble scCello + scGPT (Wu et al. 2025) | Protocol: Cross-atlas annotation transfer, HLCA to Tabula Sapiens, 14 shared cell types (Wu et al. 2025 Table S3) Dataset: Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing | 0.793 top-1-accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcescGPT + scCello: HLCA to Tabula Sapiens transfer (Wu et al. 2025) cell-type-20261009-protocol-wu2025-hlca-to-ts Aggregation: Not reported Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) · Table S3, cell B14, row 'scGPT + scCello', column 'Accuracy@1' |
Source checking is not independent reproduction. Release 2026-10-10-6e93f504adfc.
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6 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.population 483 K cells from 24 tissues across 15 donors; label column 'cell_ontology_class'; 120 leaf cell types kept after the same processing Context-only references | Biology-driven insights into the power of single-cell foundation models Table 2; Methods 'Batch integration and cell type annotation' paragraphs 1-3 Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.source_locator Table 2; Methods 'Batch integration and cell type annotation' paragraphs 1-3 Context-only references | Biology-driven insights into the power of single-cell foundation models Table 2; Methods 'Batch integration and cell type annotation' paragraphs 1-3 Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.split Reference model trained on a 20% stratified split; query test set is every cell of the 14 cell types shared by the two atlases Context-only references | Biology-driven insights into the power of single-cell foundation models Table 2; Methods 'Batch integration and cell type annotation' paragraphs 1-3 Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.version CELLxGENE collection as downloaded by the authors (Table 2) Context-only references | Biology-driven insights into the power of single-cell foundation models Table 2; Methods 'Batch integration and cell type annotation' paragraphs 1-3 Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| description Public atlas used as reference or query for annotation transfer; labels are the atlas annotations. Context-only references | Biology-driven insights into the power of single-cell foundation models Table 2; Methods 'Batch integration and cell type annotation' paragraphs 1-3 Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| name Tabula Sapiens (CELLxGENE), 120 leaf cell types after processing Context-only references | Biology-driven insights into the power of single-cell foundation models Table 2; Methods 'Batch integration and cell type annotation' paragraphs 1-3 Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Release 2026-10-10-6e93f504adfc · Record review: source checked
Stable ID: cell-type-20261009-data-wu2025-tabula-sapiens