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DNABERT2 (GenBench)

DNABERT2 as fine-tuned in GenBench.

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.

Evaluations and results

52 evaluations · 55 results. Different protocols are not a single leaderboard.

Sorted by Accuracy (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	Protocol and dataset	Accuracy	Accuracy (task-level value as printed in Table 4)	Accuracy (task-level value as printed in Table 4; mean of the Table 10 dataset rows)	Pearson	MSE	AUROC	AUROC (mean of donor and acceptor as printed)	Pearson (mean of dev and hk as printed)	Spearman
DNABERT2 (GenBench)Evaluation	GenBench Long-range Promoters Prediction, GenBench Long-range Promoters Prediction	0.976 (best in column)	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Promoter Detection, dataset notata, GenBench Human Promoter Detection, dataset notata	0.966	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Promoter Detection, dataset all, GenBench Human Promoter Detection, dataset all	0.925	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Mouse Transcription Factor Prediction, dataset 1, GenBench Mouse Transcription Factor Prediction, dataset 1	0.919	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H4, GenBench Yeast Epigenetic Marks Prediction, dataset H4	0.906	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Mouse Transcription Factor Prediction, dataset 2, GenBench Mouse Transcription Factor Prediction, dataset 2	0.897	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3, GenBench Yeast Epigenetic Marks Prediction, dataset H3	0.897	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, dataset 4, GenBench Human Transcription Factor Prediction, dataset 4	0.862	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, dataset 1, GenBench Human Transcription Factor Prediction, dataset 1	0.852	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Core Promoter Detection, dataset notata, GenBench Human Core Promoter Detection, dataset notata	0.844	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Mouse Transcription Factor Prediction, dataset 3, GenBench Mouse Transcription Factor Prediction, dataset 3	0.842	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K79me3, GenBench Yeast Epigenetic Marks Prediction, dataset H3K79me3	0.841	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, dataset 0, GenBench Human Transcription Factor Prediction, dataset 0	0.838	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Core Promoter Detection, dataset all, GenBench Human Core Promoter Detection, dataset all	0.824	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K9ac, GenBench Yeast Epigenetic Marks Prediction, dataset H3K9ac	0.814	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Core Promoter Detection, dataset tata, GenBench Human Core Promoter Detection, dataset tata	0.81	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Promoter Detection, dataset tata, GenBench Human Promoter Detection, dataset tata	0.806	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, dataset 2, GenBench Human Transcription Factor Prediction, dataset 2	0.802	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K36me3, GenBench Yeast Epigenetic Marks Prediction, dataset H3K36me3	0.797	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K14ac, GenBench Yeast Epigenetic Marks Prediction, dataset H3K14ac	0.779	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H4ac, GenBench Yeast Epigenetic Marks Prediction, dataset H4ac	0.769	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me3, GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me3	0.76	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, dataset 3, GenBench Human Transcription Factor Prediction, dataset 3	0.755	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Long-range Species Classification, GenBench Long-range Species Classification	0.747	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Mouse Transcription Factor Prediction, dataset 0, GenBench Mouse Transcription Factor Prediction, dataset 0	0.744	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me2, GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me2	0.734	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Mouse Transcription Factor Prediction, dataset 4, GenBench Mouse Transcription Factor Prediction, dataset 4	0.733	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me1, GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me1	0.726	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Bulk RNA expression, GenBench Bulk RNA expression	Not reported	Not reported	Not reported	Not reported	0.451	Not reported	Not reported	Not reported	0.767
DNABERT2 (GenBench)Evaluation	GenBench Drosophila enhancer activity (dev), GenBench Drosophila enhancer activity (dev)	Not reported	Not reported	Not reported	0.617	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Drosophila enhancer activity (hk), GenBench Drosophila enhancer activity (hk)	Not reported	Not reported	Not reported	0.734 (best in column)	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Drosophila enhancer activity (Mean), GenBench Drosophila enhancer activity (Mean)	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	0.678	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Genomic structure prediction (H1-ESC), GenBench Genomic structure prediction (H1-ESC)	Not reported	Not reported	Not reported	-	-	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Genomic structure prediction (HFF), GenBench Genomic structure prediction (HFF)	Not reported	Not reported	Not reported	-	-	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Long-range splice site prediction (Mean), GenBench Long-range splice site prediction (Mean)	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	0.671	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Long-range splice site prediction (Splice acceptor), GenBench Long-range splice site prediction (Splice acceptor)	Not reported	Not reported	Not reported	Not reported	Not reported	0.707 (best in column)	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Long-range splice site prediction (Splice donar), GenBench Long-range splice site prediction (Splice donar)	Not reported	Not reported	Not reported	Not reported	Not reported	0.635	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Coding vs Intergenomic, GenBench Coding vs Intergenomic	Not reported	0.936	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Core Promoter Detection, GenBench Human Core Promoter Detection	Not reported	Not reported	0.826	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Enhancers Cohn, GenBench Human Enhancers Cohn	Not reported	0.759	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Enhancers Ensembl, GenBench Human Enhancers Ensembl	Not reported	0.907	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Ensembl Regulatory, GenBench Human Ensembl Regulatory	Not reported	0.883	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Nontata Promoters, GenBench Human Nontata Promoters	Not reported	0.952	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human OCR Ensembl, GenBench Human OCR Ensembl	Not reported	0.758	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Promoter Detection, GenBench Human Promoter Detection	Not reported	Not reported	0.899 (best in column)	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Splice Site Detection, GenBench Human Splice Site Detection	Not reported	0.881	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, GenBench Human Transcription Factor Prediction	Not reported	Not reported	0.822	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Human vs Worm, GenBench Human vs Worm	Not reported	0.974 (best in column)	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Mouse Enhancers, GenBench Mouse Enhancers	Not reported	0.818	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Mouse Transcription Factor Prediction, GenBench Mouse Transcription Factor Prediction	Not reported	Not reported	0.827	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Virus Covid Variant Classification, GenBench Virus Covid Variant Classification	Not reported	0.72	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
DNABERT2 (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, GenBench Yeast Epigenetic Marks Prediction	Not reported	Not reported	0.802	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported

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Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

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GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Original source · arXiv 2406.01627 version 2

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Stable ID: lit-genomics-20261011-genbench-config-dnabert2

areas: dna-genomes
contexts: research
method types: foundation_model
reported name: DNABERT2
foundation model eligible: true
parameters: 117M parameters (Table 9); fine-tuned 100 epochs, AdamW, cosine decay
access reuse: Public checkpoint
source locator: Table 9; table headers
missing metadata: version: reason: unreported; note: Checkpoint name not printed; parameter count only

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Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Bulk RNA expression Dataset: GenBench Bulk RNA expression	0.451 MSE unitless · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Bulk RNA expression lit-genomics-20261011-genbench-protocol-bulk-rna-expression Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 8, row 'Bulk RNA expression', column 'DNABERT2 MSE'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Bulk RNA expression Dataset: GenBench Bulk RNA expression	0.767 Spearman unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Bulk RNA expression lit-genomics-20261011-genbench-protocol-bulk-rna-expression Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 8, row 'Bulk RNA expression', column 'DNABERT2 Spearman'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Drosophila enhancer activity (dev) Dataset: GenBench Drosophila enhancer activity (dev)	0.617 Pearson unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Drosophila enhancer activity (dev) lit-genomics-20261011-genbench-protocol-drosophila-enhancer-activity-dev Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 3, row 'Drosophila enhancer activity (dev)', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Drosophila enhancer activity (hk) Dataset: GenBench Drosophila enhancer activity (hk)	0.734 Pearson unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Drosophila enhancer activity (hk) lit-genomics-20261011-genbench-protocol-drosophila-enhancer-activity-hk Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 3, row 'Drosophila enhancer activity (hk)', column 'DNABERT2'
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 checked Methods, coverage and source DNABERT2 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: DNABERT2 (GenBench)	Protocol: GenBench Genomic structure prediction (H1-ESC) Dataset: GenBench Genomic structure prediction (H1-ESC)	- MSE unitless · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Genomic structure prediction (H1-ESC) lit-genomics-20261011-genbench-protocol-genome-structure-h1-esc Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 7, row 'Genomic structure prediction (H1-ESC)', column 'DNABERT2 MSE'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Genomic structure prediction (H1-ESC) Dataset: GenBench Genomic structure prediction (H1-ESC)	- Pearson unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Genomic structure prediction (H1-ESC) lit-genomics-20261011-genbench-protocol-genome-structure-h1-esc Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 7, row 'Genomic structure prediction (H1-ESC)', column 'DNABERT2 Pearson'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Genomic structure prediction (HFF) Dataset: GenBench Genomic structure prediction (HFF)	- MSE unitless · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Genomic structure prediction (HFF) lit-genomics-20261011-genbench-protocol-genome-structure-hff Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 7, row 'Genomic structure prediction (HFF)', column 'DNABERT2 MSE'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Genomic structure prediction (HFF) Dataset: GenBench Genomic structure prediction (HFF)	- Pearson unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Genomic structure prediction (HFF) lit-genomics-20261011-genbench-protocol-genome-structure-hff Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 7, row 'Genomic structure prediction (HFF)', column 'DNABERT2 Pearson'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Long-range Promoters Prediction Dataset: GenBench Long-range Promoters Prediction	0.976 Accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Long-range Promoters Prediction lit-genomics-20261011-genbench-protocol-long-promoters-prediction Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 6, row 'Long-range Promoters Prediction', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Long-range Species Classification Dataset: GenBench Long-range Species Classification	0.747 Accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Long-range Species Classification lit-genomics-20261011-genbench-protocol-long-species-classification Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 6, row 'Long-range Species Classification', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Long-range splice site prediction (Mean) Dataset: GenBench Long-range splice site prediction (Mean)	0.671 AUROC (mean of donor and acceptor as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Long-range splice site prediction (Mean) lit-genomics-20261011-genbench-protocol-long-splice-mean Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 5, row 'Long-range splice site prediction (Mean)', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Long-range splice site prediction (Splice acceptor) Dataset: GenBench Long-range splice site prediction (Splice acceptor)	0.707 AUROC unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Long-range splice site prediction (Splice acceptor) lit-genomics-20261011-genbench-protocol-long-splice-splice-acceptor Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 5, row 'Long-range splice site prediction (Splice acceptor)', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Long-range splice site prediction (Splice donar) Dataset: GenBench Long-range splice site prediction (Splice donar)	0.635 AUROC unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Long-range splice site prediction (Splice donar) lit-genomics-20261011-genbench-protocol-long-splice-splice-donar Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 5, row 'Long-range splice site prediction (Splice donar)', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Coding vs Intergenomic Dataset: GenBench Coding vs Intergenomic	0.936 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Coding vs Intergenomic lit-genomics-20261011-genbench-protocol-short-coding-vs-intergenomic Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Coding vs Intergenomic', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human Core Promoter Detection Dataset: GenBench Human Core Promoter Detection	0.826 Accuracy (task-level value as printed in Table 4; mean of the Table 10 dataset rows) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human Core Promoter Detection lit-genomics-20261011-genbench-protocol-short-human-core-promoter-detection Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Core Promoter Detection', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human Core Promoter Detection, dataset all Dataset: GenBench Human Core Promoter Detection, dataset all	0.824 Accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human Core Promoter Detection, dataset all lit-genomics-20261011-genbench-protocol-short-human-core-promoter-detection-all Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 10, row 'Human Core Promoter Detection, dataset all', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human Core Promoter Detection, dataset notata Dataset: GenBench Human Core Promoter Detection, dataset notata	0.844 Accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human Core Promoter Detection, dataset notata lit-genomics-20261011-genbench-protocol-short-human-core-promoter-detection-notata Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 10, row 'Human Core Promoter Detection, dataset notata', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human Core Promoter Detection, dataset tata Dataset: GenBench Human Core Promoter Detection, dataset tata	0.81 Accuracy fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human Core Promoter Detection, dataset tata lit-genomics-20261011-genbench-protocol-short-human-core-promoter-detection-tata Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 10, row 'Human Core Promoter Detection, dataset tata', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human Enhancers Cohn Dataset: GenBench Human Enhancers Cohn	0.759 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human Enhancers Cohn lit-genomics-20261011-genbench-protocol-short-human-enhancers-cohn Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Enhancers Cohn', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human Enhancers Ensembl Dataset: GenBench Human Enhancers Ensembl	0.907 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human Enhancers Ensembl lit-genomics-20261011-genbench-protocol-short-human-enhancers-ensembl Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Enhancers Ensembl', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human Ensembl Regulatory Dataset: GenBench Human Ensembl Regulatory	0.883 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human Ensembl Regulatory lit-genomics-20261011-genbench-protocol-short-human-ensembl-regulatory Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Ensembl Regulatory', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human Nontata Promoters Dataset: GenBench Human Nontata Promoters	0.952 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human Nontata Promoters lit-genomics-20261011-genbench-protocol-short-human-nontata-promoters Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Nontata Promoters', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human OCR Ensembl Dataset: GenBench Human OCR Ensembl	0.758 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human OCR Ensembl lit-genomics-20261011-genbench-protocol-short-human-ocr-ensembl Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human OCR Ensembl', column 'DNABERT2'
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human Promoter Detection Dataset: GenBench Human Promoter Detection	0.899 Accuracy (task-level value as printed in Table 4; mean of the Table 10 dataset rows) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human Promoter Detection lit-genomics-20261011-genbench-protocol-short-human-promoter-detection Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Promoter Detection', column 'DNABERT2'