Published annotation transfer benchmark; transcribed, not reproduced.
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1 evaluation · 2 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 + 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' |
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cell-type-20261009-protocol-wu2025-hlca-to-ts
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38 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.comparison.adaptation OnClass classifier trained on the reference; scFM frozen Context-only references | Biology-driven insights into the power of single-cell foundation models Table S3 row 19; row 'Geneformer + scFoundation' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.adaptation OnClass classifier trained on the reference; scFM frozen Context-only references | Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) Table S3 row 19; row 'Geneformer + scFoundation' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2025_3781_MOESM3_ESM.xlsx (38,926 bytes), as linked from the article XML <supplementary-material id="MOESM3"> | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.aggregation All query cells of shared types Context-only references | Biology-driven insights into the power of single-cell foundation models Table S3 row 19; row 'Geneformer + scFoundation' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.aggregation All query cells of shared types Context-only references | Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) Table S3 row 19; row 'Geneformer + scFoundation' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2025_3781_MOESM3_ESM.xlsx (38,926 bytes), as linked from the article XML <supplementary-material id="MOESM3"> | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.budget Not reported Context-only references | Biology-driven insights into the power of single-cell foundation models Table S3 row 19; row 'Geneformer + scFoundation' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.budget Not reported Context-only references | Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) Table S3 row 19; row 'Geneformer + scFoundation' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2025_3781_MOESM3_ESM.xlsx (38,926 bytes), as linked from the article XML <supplementary-material id="MOESM3"> | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.dataset_version CELLxGENE downloads (Table 2) Context-only references | Biology-driven insights into the power of single-cell foundation models Table S3 row 19; row 'Geneformer + scFoundation' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.dataset_version CELLxGENE downloads (Table 2) Context-only references | Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) Table S3 row 19; row 'Geneformer + scFoundation' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2025_3781_MOESM3_ESM.xlsx (38,926 bytes), as linked from the article XML <supplementary-material id="MOESM3"> | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.inputs Zero-shot scFM cell embeddings Context-only references | Biology-driven insights into the power of single-cell foundation models Table S3 row 19; row 'Geneformer + scFoundation' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Genome Biology 26:334, published 2025-10-03; PMC12492631 full-text XML | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.inputs Zero-shot scFM cell embeddings Context-only references | Wu et al. 2025, Additional file 3 (Supplementary Tables S1-S13) Table S3 row 19; row 'Geneformer + scFoundation' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 13059_2025_3781_MOESM3_ESM.xlsx (38,926 bytes), as linked from the article XML <supplementary-material id="MOESM3"> | not individually reviewed No individual claim review recorded independent paper 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-eval-wu2025-hlca-to-ts-ensemble-geneformer-scfoundation