GenBench Drosophila enhancer activity (Mean)
GenBench task Drosophila enhancer activity (Mean).
Overview
An explanatory profile has not yet been reviewed for this record.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
6 recorded evaluations, 6 metric rows. A comparison chart has not yet been validated for these results. The table retains the individual findings and their sources.
Results
Results are available, but no reviewed comparison panel is linked in this release.
All evaluations
6 evaluations · 6 results. Different protocols are not a single leaderboard.
Protocol: GenBench Drosophila enhancer activity (Mean) · Dataset: GenBench Drosophila enhancer activity (Mean)
Sorted by Pearson (mean of dev and hk as printed) (higher is better). The best value in each column is highlighted. Decimals are rounded for display; each value links to the printed value and its source.
| Tested configuration | Pearson (mean of dev and hk as printed) |
|---|---|
| GENA-LM (GenBench)Evaluation | 0.682 (best in column) |
| DNABERT2 (GenBench)Evaluation | 0.678 |
| NT (GenBench)Evaluation | 0.674 |
| HyenaDNA (GenBench)Evaluation | 0.511 |
| Caduceus (GenBench)Evaluation | 0.486 |
| DeepSTARR (GenBench)Evaluation | 0.468 |
All 6 result rows with coverage, uncertainty and sources
Filter evaluations
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Caduceus (GenBench) | Protocol: GenBench Drosophila enhancer activity (Mean) Dataset: GenBench Drosophila enhancer activity (Mean) | 0.486 Pearson (mean of dev and hk as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus on GenBench Drosophila enhancer activity (Mean) lit-genomics-20261011-genbench-protocol-drosophila-enhancer-activity-mean Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 3, row 'Drosophila enhancer activity (Mean)', column 'Caduceus' |
| Configuration: DeepSTARR (GenBench) | Protocol: GenBench Drosophila enhancer activity (Mean) Dataset: GenBench Drosophila enhancer activity (Mean) | 0.468 Pearson (mean of dev and hk as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDeepSTARR on GenBench Drosophila enhancer activity (Mean) lit-genomics-20261011-genbench-protocol-drosophila-enhancer-activity-mean Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 3, row 'Drosophila enhancer activity (Mean)', column 'DeepSTARR' |
| Configuration: DNABERT2 (GenBench) | Protocol: GenBench Drosophila enhancer activity (Mean) Dataset: GenBench Drosophila enhancer activity (Mean) | 0.678 Pearson (mean of dev and hk as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT2 on GenBench Drosophila enhancer activity (Mean) lit-genomics-20261011-genbench-protocol-drosophila-enhancer-activity-mean Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 3, row 'Drosophila enhancer activity (Mean)', column 'DNABERT2' |
| Configuration: GENA-LM (GenBench) | Protocol: GenBench Drosophila enhancer activity (Mean) Dataset: GenBench Drosophila enhancer activity (Mean) | 0.682 Pearson (mean of dev and hk as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceGENA-LM on GenBench Drosophila enhancer activity (Mean) lit-genomics-20261011-genbench-protocol-drosophila-enhancer-activity-mean Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 3, row 'Drosophila enhancer activity (Mean)', column 'GENA-LM' |
| Configuration: HyenaDNA (GenBench) | Protocol: GenBench Drosophila enhancer activity (Mean) Dataset: GenBench Drosophila enhancer activity (Mean) | 0.511 Pearson (mean of dev and hk as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceHyenaDNA on GenBench Drosophila enhancer activity (Mean) lit-genomics-20261011-genbench-protocol-drosophila-enhancer-activity-mean Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 3, row 'Drosophila enhancer activity (Mean)', column 'HyenaDNA' |
| Configuration: NT (GenBench) | Protocol: GenBench Drosophila enhancer activity (Mean) Dataset: GenBench Drosophila enhancer activity (Mean) | 0.674 Pearson (mean of dev and hk as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNucleotide Transformer on GenBench Drosophila enhancer activity (Mean) lit-genomics-20261011-genbench-protocol-drosophila-enhancer-activity-mean Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 3, row 'Drosophila enhancer activity (Mean)', column 'Nucleotide Transformer' |
Source checking is not independent reproduction. Release 2026-10-22-1b7cf027e4f6.
Methods and evaluation design
Procedure, tasks and evaluated configurations
Recorded evaluations
Each evaluation records what was tested and under which conditions.
- Caduceus on GenBench Drosophila enhancer activity (Mean)
- DeepSTARR on GenBench Drosophila enhancer activity (Mean)
- DNABERT2 on GenBench Drosophila enhancer activity (Mean)
- GENA-LM on GenBench Drosophila enhancer activity (Mean)
- HyenaDNA on GenBench Drosophila enhancer activity (Mean)
- Nucleotide Transformer on GenBench Drosophila enhancer activity (Mean)
Baseline coverage
Reference methods help show what a model adds beyond simple controls. We track a null control and a conventional method for each protocol.
0 of 2 active baseline roles have published Rewire measurements in this release. Measurements on a selected protocol do not establish coverage of an entire suite.
No execution recipe linked to this protocol. Recipe availability does not establish a completed evaluation.
- External evaluations
- 6
Literature evidence is not a Rewire measurement. Executed but unpublished runs and private review status are not included.
Null control
Proposed control: requires review
Select a task-valid null control after reviewing inputs and metric
Protocol-specific applicability, permitted inputs, access, split, evaluator and execution requirements need review before implementation or execution.
This is a suggested selection rule, not a validated method or a measured score.
Conventional reference
Proposed control: requires review
Select an upstream conventional reference after reviewing the full protocol
Protocol-specific applicability, permitted inputs, access, split, evaluator and execution requirements need review before implementation or execution.
This is a suggested selection rule, not a validated method or a measured score.
Protocol coverage CSV (gzip) · Model evaluation matrix (gzip) · Source table (gzip) · Release and checksums (gzip)
Coverage is derived from release 2026-10-22-1b7cf027e4f6. Source citations describe the original records; they do not validate an unreviewed baseline proposal. No results have been generated by this audit.
Run instructions
No runnable recipe has been reviewed for this protocol. Dataset access, model requirements, licences and compute requirements must be checked against its sources before execution.
Strengths, limitations and unresolved questions
Evidence
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Evidence table
Inspect claims, sources and review details
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One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
0 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|
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Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
1 source record and release history
- GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Original source · arXiv 2406.01627 version 2
Technical metadata and extraction receipts
Stable ID: lit-genomics-20261011-genbench-protocol-drosophila-enhancer-activity-mean
- areas
- dna-genomes
- contexts
- research
- protocol
- Fine-tuning per dataset; 'Top-1' score as printed (not defined in the source).
- version
- arXiv v2
- metric
- pearson-correlation
- metric direction
- higher
- unit
- unitless
- limitations
- 'Top-1' is not defined in the source; no uncertainty printed.
- source locator
- Table 3
Related records
- part of: GenBench
- uses data: GenBench Drosophila enhancer activity (Mean)
- assessment: Caduceus on GenBench Drosophila enhancer activity (Mean)
- assessment: DeepSTARR on GenBench Drosophila enhancer activity (Mean)
- assessment: DNABERT2 on GenBench Drosophila enhancer activity (Mean)
- assessment: GENA-LM on GenBench Drosophila enhancer activity (Mean)
- assessment: HyenaDNA on GenBench Drosophila enhancer activity (Mean)
- assessment: Nucleotide Transformer on GenBench Drosophila enhancer activity (Mean)