Arabidopsis TATA 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.
These checks assess whether the evidence supports a reproducible investigation. A source-checked score alone does not meet these requirements.
Release 2026-10-07-1448159e6a81 · Evidence verified: Not verified
Exact outcomes, predictions, identifiers and evaluator are connected.
Missing or unresolved evidence
Verified: Not verified
Replay evidence includes annotations and an assessment of dependence. Unknown independence permits descriptive analysis only.
Missing or unresolved evidence
Verified: Not verified
A pinned recipe describes the inputs, environment and resource requirements.
Missing or unresolved evidence
Verified: Not verified
Separate data and exposure records support an independent test.
Missing or unresolved evidence
Verified: Not verified
Readiness describes the evidence in this release. Availability on your computer is checked separately when an investigation runs. Existing data exposure can prevent independent validation even when files are available.
No verified artifact manifest is connected to this record yet. The gaps above identify what is needed before analysis can begin.
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 TATA classification) | Protocol: Feng Promoter Arabidopsis TATA sequence classification Dataset: Feng Promoter Arabidopsis TATA dataset | 0.937 Promoter Arabidopsis TATA AUC AUC · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-Ph Promoter Arabidopsis TATA 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 TATA row, Caduceus-Ph column (deterministic XML extraction; see data/omics/amp-coverage-20261007/feng/selected-rows.json) |
| Configuration: DNABERT-2 (Promoter Arabidopsis TATA classification) | Protocol: Feng Promoter Arabidopsis TATA sequence classification Dataset: Feng Promoter Arabidopsis TATA dataset | 0.951 Promoter Arabidopsis TATA AUC AUC · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2 Promoter Arabidopsis TATA 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 TATA row, DNABERT-2 column (deterministic XML extraction; see data/omics/amp-coverage-20261007/feng/selected-rows.json) |
| Configuration: GROVER (Promoter Arabidopsis TATA classification) | Protocol: Feng Promoter Arabidopsis TATA sequence classification Dataset: Feng Promoter Arabidopsis TATA dataset | 0.949 Promoter Arabidopsis TATA AUC AUC · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGROVER Promoter Arabidopsis TATA 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 TATA row, GROVER column (deterministic XML extraction; see data/omics/amp-coverage-20261007/feng/selected-rows.json) |
| Configuration: HyenaDNA (Promoter Arabidopsis TATA classification) | Protocol: Feng Promoter Arabidopsis TATA sequence classification Dataset: Feng Promoter Arabidopsis TATA dataset | 0.961 Promoter Arabidopsis TATA AUC AUC · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceHyenaDNA Promoter Arabidopsis TATA 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 TATA row, HyenaDNA column (deterministic XML extraction; see data/omics/amp-coverage-20261007/feng/selected-rows.json) |
| Configuration: NT-v2 (Promoter Arabidopsis TATA classification) | Protocol: Feng Promoter Arabidopsis TATA sequence classification Dataset: Feng Promoter Arabidopsis TATA dataset | 0.95 Promoter Arabidopsis TATA AUC AUC · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNT-v2 Promoter Arabidopsis TATA 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 TATA 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.
A dataset supplies biological observations. The evaluation protocol defines how those observations are split, used and scored.
Source checking verifies the cited claim or transcription. It does not establish independent reproduction.
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
5 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.population Arabidopsis TATA 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 TATA 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 TATA 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. |
View linked audit checks and correction history
Release 2026-10-07-1448159e6a81 · Record review: source checked
Stable ID: amp-feng-20261007-dataset-promoter-tata