Arabidopsis NonTATA promoter sequences from the ref34 multispecies promoter benchmark (Sec16): positives are experimentally established plant promoters; negatives are computationally derived non-promoter regions matched for high sequence similarity.; Feng et al. 2025.
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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 Arabidopsis NonTATA classification) | Protocol: Feng Promoter Arabidopsis NonTATA sequence classification Dataset: Feng Promoter Arabidopsis NonTATA dataset | 0.944 Promoter Arabidopsis NonTATA AUC AUC · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-Ph Promoter Arabidopsis NonTATA evaluation Table 2, frozen embeddings + task-specific random forest classifier Aggregation: Not reported Benchmarking DNA foundation models for genomic and genetic tasks · Table 2, Promoter Arabidopsis NonTATA row, Caduceus-Ph column (deterministic XML extraction; see data/omics/amp-coverage-20261007/feng/selected-rows.json) |
| Configuration: DNABERT-2 (Promoter Arabidopsis NonTATA classification) | Protocol: Feng Promoter Arabidopsis NonTATA sequence classification Dataset: Feng Promoter Arabidopsis NonTATA dataset | 0.946 Promoter Arabidopsis NonTATA AUC AUC · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2 Promoter Arabidopsis NonTATA evaluation Table 2, frozen embeddings + task-specific random forest classifier Aggregation: Not reported Benchmarking DNA foundation models for genomic and genetic tasks · Table 2, Promoter Arabidopsis NonTATA row, DNABERT-2 column (deterministic XML extraction; see data/omics/amp-coverage-20261007/feng/selected-rows.json) |
| Configuration: GROVER (Promoter Arabidopsis NonTATA classification) | Protocol: Feng Promoter Arabidopsis NonTATA sequence classification Dataset: Feng Promoter Arabidopsis NonTATA dataset | 0.949 Promoter Arabidopsis NonTATA AUC AUC · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGROVER Promoter Arabidopsis NonTATA evaluation Table 2, frozen embeddings + task-specific random forest classifier Aggregation: Not reported Benchmarking DNA foundation models for genomic and genetic tasks · Table 2, Promoter Arabidopsis NonTATA row, GROVER column (deterministic XML extraction; see data/omics/amp-coverage-20261007/feng/selected-rows.json) |
| Configuration: HyenaDNA (Promoter Arabidopsis NonTATA classification) | Protocol: Feng Promoter Arabidopsis NonTATA sequence classification Dataset: Feng Promoter Arabidopsis NonTATA dataset | 0.955 Promoter Arabidopsis NonTATA AUC AUC · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceHyenaDNA Promoter Arabidopsis NonTATA evaluation Table 2, frozen embeddings + task-specific random forest classifier Aggregation: Not reported Benchmarking DNA foundation models for genomic and genetic tasks · Table 2, Promoter Arabidopsis NonTATA row, HyenaDNA column (deterministic XML extraction; see data/omics/amp-coverage-20261007/feng/selected-rows.json) |
| Configuration: NT-v2 (Promoter Arabidopsis NonTATA classification) | Protocol: Feng Promoter Arabidopsis NonTATA sequence classification Dataset: Feng Promoter Arabidopsis NonTATA dataset | 0.94 Promoter Arabidopsis NonTATA AUC AUC · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT-v2 Promoter Arabidopsis NonTATA evaluation Table 2, frozen embeddings + task-specific random forest classifier Aggregation: Not reported Benchmarking DNA foundation models for genomic and genetic tasks · Table 2, Promoter Arabidopsis NonTATA row, NT-v2 column (deterministic XML extraction; see data/omics/amp-coverage-20261007/feng/selected-rows.json) |
Source checking is not independent reproduction. Release 2026-10-07-1448159e6a81.
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5 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.population Arabidopsis NonTATA promoter sequences from the ref34 multispecies promoter benchmark (Sec16): positives are experimentally established plant promoters; negatives are computationally derived non-promoter regions matched for high sequence similarity. Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks No field-specific location recorded 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. |
| attributes.split Original predefined split retained where clearly defined; otherwise a random 70:30 train/test split, tuned by fivefold cross-validation. This ref34 multispecies promoter benchmark's own partitioning is not asserted to follow the DNABERT-2/NT reshuffle rule absent explicit confirmation. Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks No field-specific location recorded 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. |
| attributes.version Not reported Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks No field-specific location recorded Version: PMC12663285.1 | missing or unspecified No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| description Arabidopsis NonTATA promoter sequences from the ref34 multispecies promoter benchmark (Sec16): positives are experimentally established plant promoters; negatives are computationally derived non-promoter regions matched for high sequence similarity.; Feng et al. 2025. Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks No field-specific location recorded 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. |
| name Feng Promoter Arabidopsis NonTATA dataset Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks No field-specific location recorded 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. |
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Release 2026-10-07-1448159e6a81 · Record review: source checked
Stable ID: amp-feng-20261007-dataset-promoter-nontata