Models / genomics / hyenadna-medium-450k-seqlen-hf / benchmarks

genomics/hyenadna-medium-450k-seqlen-hf

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Genomic Benchmarks accuracy genomics/genomic-benchmarks-accuracy

Drawn from: Genomic_Benchmarks_demo_coding_vs_intergenomic_seqs, Genomic_Benchmarks_human_enhancers_cohn, Genomic_Benchmarks_human_nontata_promoters

atlas-full-v1

Metric

Value

95% CI

n

Rank

Best in catalogue

Source

Overlap

Accuracy (logistic probe, mean of 3 sets) ↑ higher is better · probe

By dataset: 3 levels

dataset	Value [95% CI]	n
Coding vs intergenomic sequences (demo)	0.832 [0.828, 0.837]	25000
Human enhancers (Cohn)	0.700 [0.690, 0.711]	6948
Human non-TATA promoters	0.793 [0.785, 0.801]	9034

0.775

[0.770, 0.780]

40982

4 / 5

0.821

reproduced

overlap

Train/test overlap declared by the evaluator: genomics/ucsc-hg38

Macro F1 (logistic probe, mean of 3 sets) ↑ higher is better · probe · secondary

By dataset: 3 levels

dataset	Value [95% CI]	n
Coding vs intergenomic sequences (demo)	0.832 [0.828, 0.837]	25000
Human enhancers (Cohn)	0.700 [0.689, 0.711]	6948
Human non-TATA promoters	0.793 [0.784, 0.801]	9034

0.775

[0.770, 0.779]

40982

—

0.821

reproduced

overlap

Train/test overlap declared by the evaluator: genomics/ucsc-hg38

Protein abundance from coding sequence (E. coli) rna-ml/coding-sequence-protein-abundance

atlas-n100-v1

Metric	Value	95% CI	n	Rank	Best in catalogue	Source	Overlap	Board
Spearman ρ (zero-shot pseudo-log-likelihood) ↑ higher is better · zero-shot	−0.022	[−0.238, 0.193]	100	10 / 11	0.552	reproduced	none declared	Board
Spearman ρ (ridge probe) ↑ higher is better · probe	0.391	[0.215, 0.544]	100	11 / 11	0.688	reproduced	none declared	Board
RMSE (ridge probe) ↓ lower is better · log10 ppm · probe	1.168	[1.025, 1.304]	100	11 / 11	0.973	reproduced	none declared	Board
Pearson r (ridge probe) ↑ higher is better · probe · secondary	0.428	[0.275, 0.565]	100	—	0.665	reproduced	none declared	Board
R² (ridge probe) ↑ higher is better · probe · secondary	0.151	[−0.018, 0.302]	100	—	0.411	reproduced	none declared	Board