DNABERT-2 (GUE) human core promoter detection set, 70 bp (Supplementary Note 1); as used in Feng et al. 2025 Table 1.
5 evaluations · 5 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Caduceus-Ph (Promoter NonTATA 70 bps classification) | Protocol: Feng Promoter NonTATA 70 bps sequence classification Dataset: Feng Promoter NonTATA 70 bps dataset | 0.896 AUROC (task: promoter nontata 70 bps) unitless · higher Uncertainty: Not reported by the source: Table 1 prints point AUCs only. Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-Ph Promoter NonTATA 70 bps evaluation Table 1, frozen embeddings + task-specific random forest classifier Aggregation: Not reported Benchmarking DNA foundation models for genomic and genetic tasks · Table 1, row 'Promoter NonTATA 70 bps', column 'Caduceus-Ph'. Printed in bold (caption: higher than at least two other AUCs, p < 0.01, one-sided DeLong). |
| Configuration: DNABERT-2 (Promoter NonTATA 70 bps classification) | Protocol: Feng Promoter NonTATA 70 bps sequence classification Dataset: Feng Promoter NonTATA 70 bps dataset | 0.853 AUROC (task: promoter nontata 70 bps) unitless · higher Uncertainty: Not reported by the source: Table 1 prints point AUCs only. Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2 Promoter NonTATA 70 bps evaluation Table 1, frozen embeddings + task-specific random forest classifier Aggregation: Not reported Benchmarking DNA foundation models for genomic and genetic tasks · Table 1, row 'Promoter NonTATA 70 bps', column 'DNABERT-2'. |
| Configuration: GROVER (Promoter NonTATA 70 bps classification) | Protocol: Feng Promoter NonTATA 70 bps sequence classification Dataset: Feng Promoter NonTATA 70 bps dataset | 0.87 AUROC (task: promoter nontata 70 bps) unitless · higher Uncertainty: Not reported by the source: Table 1 prints point AUCs only. Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGROVER Promoter NonTATA 70 bps evaluation Table 1, frozen embeddings + task-specific random forest classifier Aggregation: Not reported Benchmarking DNA foundation models for genomic and genetic tasks · Table 1, row 'Promoter NonTATA 70 bps', column 'GROVER'. Printed in bold (caption: higher than at least two other AUCs, p < 0.01, one-sided DeLong). |
| Configuration: HyenaDNA (Promoter NonTATA 70 bps classification) | Protocol: Feng Promoter NonTATA 70 bps sequence classification Dataset: Feng Promoter NonTATA 70 bps dataset | 0.852 AUROC (task: promoter nontata 70 bps) unitless · higher Uncertainty: Not reported by the source: Table 1 prints point AUCs only. Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceHyenaDNA Promoter NonTATA 70 bps evaluation Table 1, frozen embeddings + task-specific random forest classifier Aggregation: Not reported Benchmarking DNA foundation models for genomic and genetic tasks · Table 1, row 'Promoter NonTATA 70 bps', column 'HyenaDNA'. |
| Configuration: NT-v2 (Promoter NonTATA 70 bps classification) | Protocol: Feng Promoter NonTATA 70 bps sequence classification Dataset: Feng Promoter NonTATA 70 bps dataset | 0.873 AUROC (task: promoter nontata 70 bps) unitless · higher Uncertainty: Not reported by the source: Table 1 prints point AUCs only. Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT-v2 Promoter NonTATA 70 bps evaluation Table 1, frozen embeddings + task-specific random forest classifier Aggregation: Not reported Benchmarking DNA foundation models for genomic and genetic tasks · Table 1, row 'Promoter NonTATA 70 bps', column 'NT-v2'. Printed in bold (caption: higher than at least two other AUCs, p < 0.01, one-sided DeLong). |
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Release 2026-11-02-a7f03c9e55a5 · Evidence verified: Not verified
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33 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Negatives 26333 Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks Supplementary Data 6, row 'Promoter NonTATA 70bps'; Supplementary Note 1 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: PMC12663285.1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Negatives 26333 Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Data 1-6 Supplementary Data 6, row 'Promoter NonTATA 70bps'; Supplementary Note 1 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Data 1-6 workbook (MOESM3, .xlsm) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Negatives 26333 Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Information Supplementary Data 6, row 'Promoter NonTATA 70bps'; Supplementary Note 1 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Information PDF (MOESM1, 11 pages) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Population DNABERT-2 (GUE) human core promoter detection set, 70 bp (Supplementary Note 1); sequence length median 70 bp (range 70-70 bp) per Supplementary Data 6. Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks Supplementary Data 6, row 'Promoter NonTATA 70bps'; Supplementary Note 1 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: PMC12663285.1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Population DNABERT-2 (GUE) human core promoter detection set, 70 bp (Supplementary Note 1); sequence length median 70 bp (range 70-70 bp) per Supplementary Data 6. Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Data 1-6 Supplementary Data 6, row 'Promoter NonTATA 70bps'; Supplementary Note 1 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Data 1-6 workbook (MOESM3, .xlsm) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Population DNABERT-2 (GUE) human core promoter detection set, 70 bp (Supplementary Note 1); sequence length median 70 bp (range 70-70 bp) per Supplementary Data 6. Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Information Supplementary Data 6, row 'Promoter NonTATA 70bps'; Supplementary Note 1 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Information PDF (MOESM1, 11 pages) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Positives 26533 Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks Supplementary Data 6, row 'Promoter NonTATA 70bps'; Supplementary Note 1 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: PMC12663285.1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Positives 26533 Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Data 1-6 Supplementary Data 6, row 'Promoter NonTATA 70bps'; Supplementary Note 1 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Data 1-6 workbook (MOESM3, .xlsm) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Positives 26533 Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Information Supplementary Data 6, row 'Promoter NonTATA 70bps'; Supplementary Note 1 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Information PDF (MOESM1, 11 pages) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Scope note Supplementary Data 6 label counts (26533/26333) do not sum to training plus test size (53066). Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks Supplementary Data 6, row 'Promoter NonTATA 70bps'; Supplementary Note 1 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: PMC12663285.1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
Release 2026-11-02-a7f03c9e55a5 · Record review: source checked
Stable ID: feng-dna-fm-20261013-dataset-t1-promoter-nontata-70-bps