Configuration

GENA-LM (GenBench)

GENA-LM 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
GENA-LM (GenBench)Evaluation	GenBench Long-range Promoters Prediction, GenBench Long-range Promoters Prediction	0.98 (best in column)	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Promoter Detection, dataset notata, GenBench Human Promoter Detection, dataset notata	0.962	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Promoter Detection, dataset all, GenBench Human Promoter Detection, dataset all	0.929	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Mouse Transcription Factor Prediction, dataset 1, GenBench Mouse Transcription Factor Prediction, dataset 1	0.908	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Mouse Transcription Factor Prediction, dataset 2, GenBench Mouse Transcription Factor Prediction, dataset 2	0.905	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H4, GenBench Yeast Epigenetic Marks Prediction, dataset H4	0.892	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3, GenBench Yeast Epigenetic Marks Prediction, dataset H3	0.889	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, dataset 4, GenBench Human Transcription Factor Prediction, dataset 4	0.855	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, dataset 1, GenBench Human Transcription Factor Prediction, dataset 1	0.851	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Core Promoter Detection, dataset notata, GenBench Human Core Promoter Detection, dataset notata	0.836	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, dataset 0, GenBench Human Transcription Factor Prediction, dataset 0	0.832	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K79me3, GenBench Yeast Epigenetic Marks Prediction, dataset H3K79me3	0.832	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Mouse Transcription Factor Prediction, dataset 3, GenBench Mouse Transcription Factor Prediction, dataset 3	0.829	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Core Promoter Detection, dataset all, GenBench Human Core Promoter Detection, dataset all	0.816	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, dataset 2, GenBench Human Transcription Factor Prediction, dataset 2	0.812	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Promoter Detection, dataset tata, GenBench Human Promoter Detection, dataset tata	0.81	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Core Promoter Detection, dataset tata, GenBench Human Core Promoter Detection, dataset tata	0.791	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K9ac, GenBench Yeast Epigenetic Marks Prediction, dataset H3K9ac	0.784	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, dataset 3, GenBench Human Transcription Factor Prediction, dataset 3	0.777	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K36me3, GenBench Yeast Epigenetic Marks Prediction, dataset H3K36me3	0.776	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Long-range Species Classification, GenBench Long-range Species Classification	0.773	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K14ac, GenBench Yeast Epigenetic Marks Prediction, dataset H3K14ac	0.76	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Mouse Transcription Factor Prediction, dataset 0, GenBench Mouse Transcription Factor Prediction, dataset 0	0.757	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H4ac, GenBench Yeast Epigenetic Marks Prediction, dataset H4ac	0.753	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (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
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me1, GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me1	0.721	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me3, GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me3	0.714	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me2, GenBench Yeast Epigenetic Marks Prediction, dataset H3K4me2	0.707	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Bulk RNA expression, GenBench Bulk RNA expression	Not reported	Not reported	Not reported	Not reported	0.496	Not reported	Not reported	Not reported	0.748
GENA-LM (GenBench)Evaluation	GenBench Drosophila enhancer activity (dev), GenBench Drosophila enhancer activity (dev)	Not reported	Not reported	Not reported	0.624	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Drosophila enhancer activity (hk), GenBench Drosophila enhancer activity (hk)	Not reported	Not reported	Not reported	0.74 (best in column)	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (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	0.682	Not reported
GENA-LM (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
GENA-LM (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
GENA-LM (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	0.679	Not reported	Not reported
GENA-LM (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	0.73 (best in column)	Not reported	Not reported	Not reported
GENA-LM (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	0.629	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Coding vs Intergenomic, GenBench Coding vs Intergenomic	Not reported	0.932	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Core Promoter Detection, GenBench Human Core Promoter Detection	Not reported	Not reported	0.814	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Enhancers Cohn, GenBench Human Enhancers Cohn	Not reported	0.756	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Enhancers Ensembl, GenBench Human Enhancers Ensembl	Not reported	0.911	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Ensembl Regulatory, GenBench Human Ensembl Regulatory	Not reported	0.881	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Nontata Promoters, GenBench Human Nontata Promoters	Not reported	0.966	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human OCR Ensembl, GenBench Human OCR Ensembl	Not reported	0.79	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Promoter Detection, GenBench Human Promoter Detection	Not reported	Not reported	0.9 (best in column)	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Splice Site Detection, GenBench Human Splice Site Detection	Not reported	0.918	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human Transcription Factor Prediction, GenBench Human Transcription Factor Prediction	Not reported	Not reported	0.824	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Human vs Worm, GenBench Human vs Worm	Not reported	0.97 (best in column)	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Mouse Enhancers, GenBench Mouse Enhancers	Not reported	0.83	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (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
GENA-LM (GenBench)Evaluation	GenBench Virus Covid Variant Classification, GenBench Virus Covid Variant Classification	Not reported	0.703	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported	Not reported
GENA-LM (GenBench)Evaluation	GenBench Yeast Epigenetic Marks Prediction, GenBench Yeast Epigenetic Marks Prediction	Not reported	Not reported	0.783	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-gena-lm

areas: dna-genomes
contexts: research
method types: foundation_model
reported name: GENA-LM
foundation model eligible: true
parameters: 113M 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: GENA-LM (GenBench)	Protocol: GenBench Bulk RNA expression Dataset: GenBench Bulk RNA expression	0.496 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 GENA-LM 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 'GENA-LM MSE'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Bulk RNA expression Dataset: GenBench Bulk RNA expression	0.748 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 GENA-LM 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 'GENA-LM Spearman'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Drosophila enhancer activity (dev) Dataset: GenBench Drosophila enhancer activity (dev)	0.624 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Drosophila enhancer activity (hk) Dataset: GenBench Drosophila enhancer activity (hk)	0.74 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 GENA-LM 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 'GENA-LM'
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 checked Methods, coverage and source GENA-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: GENA-LM (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 GENA-LM 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 'GENA-LM MSE'
Configuration: GENA-LM (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 GENA-LM 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 'GENA-LM Pearson'
Configuration: GENA-LM (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 GENA-LM 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 'GENA-LM MSE'
Configuration: GENA-LM (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 GENA-LM 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 'GENA-LM Pearson'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Long-range Promoters Prediction Dataset: GenBench Long-range Promoters Prediction	0.98 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Long-range Species Classification Dataset: GenBench Long-range Species Classification	0.773 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Long-range splice site prediction (Mean) Dataset: GenBench Long-range splice site prediction (Mean)	0.679 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Long-range splice site prediction (Splice acceptor) Dataset: GenBench Long-range splice site prediction (Splice acceptor)	0.73 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Long-range splice site prediction (Splice donar) Dataset: GenBench Long-range splice site prediction (Splice donar)	0.629 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Coding vs Intergenomic Dataset: GenBench Coding vs Intergenomic	0.932 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human Core Promoter Detection Dataset: GenBench Human Core Promoter Detection	0.814 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human Core Promoter Detection, dataset all Dataset: GenBench Human Core Promoter Detection, dataset all	0.816 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human Core Promoter Detection, dataset notata Dataset: GenBench Human Core Promoter Detection, dataset notata	0.836 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human Core Promoter Detection, dataset tata Dataset: GenBench Human Core Promoter Detection, dataset tata	0.791 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human Enhancers Cohn Dataset: GenBench Human Enhancers Cohn	0.756 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human Enhancers Ensembl Dataset: GenBench Human Enhancers Ensembl	0.911 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human Ensembl Regulatory Dataset: GenBench Human Ensembl Regulatory	0.881 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human Nontata Promoters Dataset: GenBench Human Nontata Promoters	0.966 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human OCR Ensembl Dataset: GenBench Human OCR Ensembl	0.79 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 GENA-LM 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 'GENA-LM'
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human Promoter Detection Dataset: GenBench Human Promoter Detection	0.9 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 GENA-LM 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 'GENA-LM'