DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
Regulatory element identification, zero-shot accuracy. Scored with Accuracy on ENCODE cCREs against dinucleotide-shuffled backgrounds. Distinguish ENCODE cCREs from dinucleotide-shuffled background sequences, scored zero-shot from model likelihood.
Overview
Regulatory element identification, zero-shot accuracy. Scored with Accuracy on ENCODE cCREs against dinucleotide-shuffled backgrounds. Distinguish ENCODE cCREs from dinucleotide-shuffled background sequences, scored zero-shot from model likelihood.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Results
Each comparison retains its reviewed evaluation scope, dataset and metric. Results are shown without a pooled ranking.
DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
accuracy (fraction) · Higher values are better.
DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy · ENCODE cCREs against dinucleotide-shuffled backgrounds (DART-Eval split)
Evidence origin: Author-reported evaluation.
DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · Table 3, column(Zero-Shot Accuracy)- The evaluation setting is part of the method name: a zero-shot, probed and fine-tuned run of the same model are different entries.
- Metrics and datasets differ between tasks, so these figures cannot be averaged into one score.
Comparison details and limitations
Every method DART-Eval reports on Regulatory element identification, zero-shot accuracy, scored with Accuracy on ENCODE cCREs against dinucleotide-shuffled backgrounds.
- Author-reported numbers, source checked but not independently reproduced.
Automated source review: 2026-09-19. Numerical source review does not establish independent reproduction.
Dots show point estimates. Whiskers show only explicitly defined uncertainty (standard deviation, standard error or a labelled interval); their definitions remain in Table. Unresolved uncertainty is not plotted. Differences do not establish statistical significance.
Showing 6 of 6 matching rows.
Methods and evaluation design
Procedure, tasks and evaluated configurations
Evaluation design
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Benchmarks
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Recorded evaluations
Each evaluation records what was tested and under which conditions.
- Caduceus (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
- DNABERT-2 (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
- GENA-LM (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
- HyenaDNA (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
- Mistral-DNA (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
- Nucleotide Transformer (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
Run instructions
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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.
1 evidence row matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Relationship: part of discovery-benchmark-dart-eval Individual claims | DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA Table 3, column(Zero-Shot Accuracy) Version: 2412.05430v1 | source checked automated source review · 2026-09-19 Audit detailsPrimary-source transcription with no human sign-off and no independent reproduction. Field: Claim: dart-eval-association-rei-acc Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
Sources and history
View linked audit checks and correction history
Release 2026-09-29-06401fd5b220 · Record review: source checked
1 source records and release history
- DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · Original source · 2412.05430v1
Technical metadata and extraction receipts
Stable ID: dart-eval-task-rei-acc
- areas
- dna-genomes
- tasks
- Regulatory element identification, zero-shot accuracy
- metric
- Accuracy
- metric direction
- higher
- dataset
- ENCODE cCREs against dinucleotide-shuffled backgrounds
- protocol
- Distinguish ENCODE cCREs from dinucleotide-shuffled background sequences, scored zero-shot from model likelihood.
- source locator
- Table 3, column(Zero-Shot Accuracy)
- comparison panels
- id: dart-eval-panel-rei-acc; title: DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy; protocol id: dart-eval-task-rei-acc; dataset id: dart-eval-dataset-encode-ccres-against-dinucleotide-shuffled-backgrounds; metric: accuracy; unit: fraction; direction: higher; result ids: dart-eval-result-caduceus-zero-shot-rei-acc-accuracy; dart-eval-result-dnabert-2-zero-shot-rei-acc-accuracy; dart-eval-result-gena-lm-zero-shot-rei-acc-accuracy; dart-eval-result-hyenadna-zero-shot-rei-acc-accuracy; dart-eval-result-mistral-dna-zero-shot-rei-acc-accuracy; dart-eval-result-nucleotide-transformer-zero-shot-rei-acc-accuracy; source ids: evidence-expansion-p2-evidence-discovery-final-dart-4194b137ba55; source locator: Table 3, column(Zero-Shot Accuracy); context: Every method DART-Eval reports on Regulatory element identification, zero-shot accuracy, scored with Accuracy on ENCODE cCREs against dinucleotide-shuffled backgrounds.; caveats: Author-reported numbers, source checked but not independently reproduced.; The evaluation setting is part of the method name: a zero-shot, probed and fine-tuned run of the same model are different entries.; Metrics and datasets differ between tasks, so these figures cannot be averaged into one score.; review: method: automated_source_review; date: 2026-09-19
Related records
- part of: DART-Eval
- subject: DART-Eval REI-ACC: part of discovery-benchmark-dart-eval
- benchmark: Caduceus (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
- benchmark: DNABERT-2 (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
- benchmark: GENA-LM (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
- benchmark: HyenaDNA (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
- benchmark: Mistral-DNA (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy
- benchmark: Nucleotide Transformer (zero-shot) on DART-Eval REI-ACC: Regulatory element identification, zero-shot accuracy