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1 evaluation · 1 result. Different protocols are not a single leaderboard.
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| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: ESM1b PLLR indel score (Brandes et al. 2023) | Protocol: ClinVar in-frame indel pathogenicity, ROC-AUC (Brandes et al. 2023 Fig. 6b, Supplementary Table 2) Dataset subset: ClinVar in-frame insertions (Brandes et al. 2023) | 0.859 AUROC (ROC-AUC, pathogenic versus benign ClinVar insertions; zero-shot) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceESM1b-PLLR on insertions (Brandes et al. 2023) gfm-guides-20261014-esm1b-protocol-clinvar-inframe-indels Aggregation: Not reported Brandes et al. 2023 Supplementary Table 2: full benchmark evaluations of ESM1b and all other methods · Supplementary Table 2 sheet 'Table_of_results_indels' cell C3, row 'ESM1b-PLLR', column 'AUC_ins' |
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ClinVar in-frame indel pathogenicity, ROC-AUC (Brandes et al. 2023 Fig. 6b, Supplementary Table 2)
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36 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Comparison: adaptation zero-shot Context-only references | Genome-wide prediction of disease variant effects with a deep protein language model (Brandes et al., Nature Genetics 2023) Supplementary Table 2 sheet 'Table_of_results_indels' row 3 ('ESM1b-PLLR') Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Version of record, Nature Genetics 55, 1512-1522 (published 2023-08-10) | 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 Archive member: artifacts/brandes2023-pmc10484790.xml.gz |
| Comparison: adaptation zero-shot Context-only references | Brandes et al. 2023 Supplementary Table 2: full benchmark evaluations of ESM1b and all other methods Supplementary Table 2 sheet 'Table_of_results_indels' row 3 ('ESM1b-PLLR') Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Version of record, Nature Genetics 55, 1512-1522 (published 2023-08-10) | 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 Archive member: artifacts/brandes2023-supplementary-table-2.xlsx.gz |
| Comparison: aggregation Not reported Context-only references | Genome-wide prediction of disease variant effects with a deep protein language model (Brandes et al., Nature Genetics 2023) Supplementary Table 2 sheet 'Table_of_results_indels' row 3 ('ESM1b-PLLR') Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Version of record, Nature Genetics 55, 1512-1522 (published 2023-08-10) | missing or unspecified No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Archive member: artifacts/brandes2023-pmc10484790.xml.gz |
| Comparison: aggregation Not reported Context-only references | Brandes et al. 2023 Supplementary Table 2: full benchmark evaluations of ESM1b and all other methods Supplementary Table 2 sheet 'Table_of_results_indels' row 3 ('ESM1b-PLLR') Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Version of record, Nature Genetics 55, 1512-1522 (published 2023-08-10) | missing or unspecified No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Archive member: artifacts/brandes2023-supplementary-table-2.xlsx.gz |
| Comparison: budget Not reported Context-only references | Genome-wide prediction of disease variant effects with a deep protein language model (Brandes et al., Nature Genetics 2023) Supplementary Table 2 sheet 'Table_of_results_indels' row 3 ('ESM1b-PLLR') Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Version of record, Nature Genetics 55, 1512-1522 (published 2023-08-10) | missing or unspecified No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Archive member: artifacts/brandes2023-pmc10484790.xml.gz |
| Comparison: budget Not reported Context-only references | Brandes et al. 2023 Supplementary Table 2: full benchmark evaluations of ESM1b and all other methods Supplementary Table 2 sheet 'Table_of_results_indels' row 3 ('ESM1b-PLLR') Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Version of record, Nature Genetics 55, 1512-1522 (published 2023-08-10) | missing or unspecified No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Archive member: artifacts/brandes2023-supplementary-table-2.xlsx.gz |
| Comparison: dataset version ClinVar variant_summary downloaded 2023-01-24 Context-only references | Genome-wide prediction of disease variant effects with a deep protein language model (Brandes et al., Nature Genetics 2023) Supplementary Table 2 sheet 'Table_of_results_indels' row 3 ('ESM1b-PLLR') Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Version of record, Nature Genetics 55, 1512-1522 (published 2023-08-10) | 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 Archive member: artifacts/brandes2023-pmc10484790.xml.gz |
| Comparison: dataset version ClinVar variant_summary downloaded 2023-01-24 Context-only references | Brandes et al. 2023 Supplementary Table 2: full benchmark evaluations of ESM1b and all other methods Supplementary Table 2 sheet 'Table_of_results_indels' row 3 ('ESM1b-PLLR') Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Version of record, Nature Genetics 55, 1512-1522 (published 2023-08-10) | 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 Archive member: artifacts/brandes2023-supplementary-table-2.xlsx.gz |
| Comparison: inputs Wild-type and mutated protein sequences (ESM1b and sequence baselines); variant coordinates (CADD, 50 bp rule) Context-only references | Genome-wide prediction of disease variant effects with a deep protein language model (Brandes et al., Nature Genetics 2023) Supplementary Table 2 sheet 'Table_of_results_indels' row 3 ('ESM1b-PLLR') Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Version of record, Nature Genetics 55, 1512-1522 (published 2023-08-10) | 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 Archive member: artifacts/brandes2023-pmc10484790.xml.gz |
| Comparison: inputs Wild-type and mutated protein sequences (ESM1b and sequence baselines); variant coordinates (CADD, 50 bp rule) Context-only references | Brandes et al. 2023 Supplementary Table 2: full benchmark evaluations of ESM1b and all other methods Supplementary Table 2 sheet 'Table_of_results_indels' row 3 ('ESM1b-PLLR') Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Version of record, Nature Genetics 55, 1512-1522 (published 2023-08-10) | 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 Archive member: artifacts/brandes2023-supplementary-table-2.xlsx.gz |
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
Stable ID: gfm-guides-20261014-esm1b-eval-clinvar-inframe-indels-insertions-esm1b-pllr