Configuration

Evo2 (zero-shot, GFMBench-API)

Configuration of Evo 2: 1B parameters; NVIDIA BioNeMo implementation; zero-shot.

Overview

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Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.

Evaluations and results

18 evaluations · 68 results. Different protocols are not a single leaderboard.

Sorted by AUPRC (zero-shot; autoregressive log-likelihood ratio over mean token probabilities) (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	AUPRC (zero-shot; autoregressive log-likelihood ratio over mean token probabilities)	AUPRC (zero-shot; cosine similarity of reference and alternate sequence embeddings)	AUPRC (zero-shot; L2 distance of reference and alternate sequence embeddings)	AUROC (zero-shot; autoregressive log-likelihood ratio over mean token probabilities)	AUROC (zero-shot; cosine similarity of reference and alternate sequence embeddings)	AUROC (zero-shot; L2 distance of reference and alternate sequence embeddings)	AUPRC (zero-shot; cosine similarity of embeddings at the SNV position)	AUROC (zero-shot; cosine similarity of embeddings at the SNV position)
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API Songlab ClinVar, zs-ar-llr, Songlab ClinVar test set (GFMBench-API)	0.933 (best in column)	Not reported	Not reported	0.921 (best in column)	Not reported	Not reported	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API ClinVar Indel Pathogenicity, zs-ar-llr, ClinVar Indel Pathogenicity test set (GFMBench-API)	0.892	Not reported	Not reported	0.627	Not reported	Not reported	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API Bend Variant Effects Disease, zs-ar-llr, Bend Variant Effects Disease test set (GFMBench-API)	0.742	Not reported	Not reported	0.919	Not reported	Not reported	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API BRCA1, zs-ar-llr, BRCA1 test set (GFMBench-API)	0.533	Not reported	Not reported	0.741	Not reported	Not reported	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API TraitGym Mendelian, zs-ar-llr, TraitGym Mendelian test set (GFMBench-API)	0.161	Not reported	Not reported	0.604	Not reported	Not reported	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API LOL-EVE, zs-ar-llr, LOL-EVE test set (GFMBench-API)	0.109	Not reported	Not reported	0.548	Not reported	Not reported	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API TraitGym Complex, zs-ar-llr, TraitGym Complex test set (GFMBench-API)	0.0939	Not reported	Not reported	0.492	Not reported	Not reported	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API Bend Variant Effects Expression, zs-ar-llr, Bend Variant Effects Expression test set (GFMBench-API)	0.0685	Not reported	Not reported	0.488	Not reported	Not reported	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API LRB Variant Effect OMIM, zs-ar-llr, LRB Variant Effect OMIM test set (GFMBench-API)	0.0024	Not reported	Not reported	0.508	Not reported	Not reported	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API Bend Variant Effects Disease, zs-embedding, Bend Variant Effects Disease test set (GFMBench-API)	Not reported	0.474	0.596	Not reported	0.872	0.912	0.0944	0.615 (best in column)
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API Bend Variant Effects Expression, zs-embedding, Bend Variant Effects Expression test set (GFMBench-API)	Not reported	0.0904	0.0897	Not reported	0.582	0.573	0.0887	0.557
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API BRCA1, zs-embedding, BRCA1 test set (GFMBench-API)	Not reported	0.54	0.575	Not reported	0.747	0.775	0.204	0.467
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API ClinVar Indel Pathogenicity, zs-embedding, ClinVar Indel Pathogenicity test set (GFMBench-API)	Not reported	0.989 (best in column)	0.993 (best in column)	Not reported	0.946 (best in column)	0.967 (best in column)	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API LOL-EVE, zs-embedding, LOL-EVE test set (GFMBench-API)	Not reported	0.0845	0.0938	Not reported	0.531	0.543	Not reported	Not reported
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API LRB Variant Effect OMIM, zs-embedding, LRB Variant Effect OMIM test set (GFMBench-API)	Not reported	0.002	0.0021	Not reported	0.501	0.502	0.002	0.498
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API Songlab ClinVar, zs-embedding, Songlab ClinVar test set (GFMBench-API)	Not reported	0.734	0.865	Not reported	0.722	0.845	0.576 (best in column)	0.579
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API TraitGym Complex, zs-embedding, TraitGym Complex test set (GFMBench-API)	Not reported	0.108	0.107	Not reported	0.527	0.524	0.106	0.523
Evo2 (zero-shot, GFMBench-API)Evaluation	GFMBench-API TraitGym Mendelian, zs-embedding, TraitGym Mendelian test set (GFMBench-API)	Not reported	0.164	0.17	Not reported	0.618	0.626	0.121	0.548

All 68 result rows with coverage, uncertainty and sources

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Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Disease, zs-ar-llr Dataset: Bend Variant Effects Disease test set (GFMBench-API)	0.742 AUPRC (zero-shot; autoregressive log-likelihood ratio over mean token probabilities) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Disease (zs-ar-llr) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-disease-zs-ar-llr Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 5, task 'Bend Variant Effects Disease', row 'Evo2', column 'Mean LLR PRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Disease, zs-ar-llr Dataset: Bend Variant Effects Disease test set (GFMBench-API)	0.919 AUROC (zero-shot; autoregressive log-likelihood ratio over mean token probabilities) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Disease (zs-ar-llr) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-disease-zs-ar-llr Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 5, task 'Bend Variant Effects Disease', row 'Evo2', column 'Mean LLR ROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Disease, zs-embedding Dataset: Bend Variant Effects Disease test set (GFMBench-API)	0.474 AUPRC (zero-shot; cosine similarity of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Disease (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-disease-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Disease', row 'Evo2', column 'Cos AUPRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Disease, zs-embedding Dataset: Bend Variant Effects Disease test set (GFMBench-API)	0.872 AUROC (zero-shot; cosine similarity of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Disease (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-disease-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Disease', row 'Evo2', column 'Cos AUROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Disease, zs-embedding Dataset: Bend Variant Effects Disease test set (GFMBench-API)	0.596 AUPRC (zero-shot; L2 distance of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Disease (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-disease-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Disease', row 'Evo2', column 'L2 AUPRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Disease, zs-embedding Dataset: Bend Variant Effects Disease test set (GFMBench-API)	0.912 AUROC (zero-shot; L2 distance of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Disease (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-disease-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Disease', row 'Evo2', column 'L2 AUROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Disease, zs-embedding Dataset: Bend Variant Effects Disease test set (GFMBench-API)	0.0944 AUPRC (zero-shot; cosine similarity of embeddings at the SNV position) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Disease (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-disease-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Disease', row 'Evo2', column 'SNV Cos AUPRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Disease, zs-embedding Dataset: Bend Variant Effects Disease test set (GFMBench-API)	0.615 AUROC (zero-shot; cosine similarity of embeddings at the SNV position) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Disease (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-disease-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Disease', row 'Evo2', column 'SNV Cos AUROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Expression, zs-ar-llr Dataset: Bend Variant Effects Expression test set (GFMBench-API)	0.0685 AUPRC (zero-shot; autoregressive log-likelihood ratio over mean token probabilities) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Expression (zs-ar-llr) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-expression-zs-ar-llr Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 5, task 'Bend Variant Effects Expression', row 'Evo2', column 'Mean LLR PRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Expression, zs-ar-llr Dataset: Bend Variant Effects Expression test set (GFMBench-API)	0.488 AUROC (zero-shot; autoregressive log-likelihood ratio over mean token probabilities) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Expression (zs-ar-llr) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-expression-zs-ar-llr Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 5, task 'Bend Variant Effects Expression', row 'Evo2', column 'Mean LLR ROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Expression, zs-embedding Dataset: Bend Variant Effects Expression test set (GFMBench-API)	0.0904 AUPRC (zero-shot; cosine similarity of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Expression (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-expression-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Expression', row 'Evo2', column 'Cos AUPRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Expression, zs-embedding Dataset: Bend Variant Effects Expression test set (GFMBench-API)	0.582 AUROC (zero-shot; cosine similarity of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Expression (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-expression-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Expression', row 'Evo2', column 'Cos AUROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Expression, zs-embedding Dataset: Bend Variant Effects Expression test set (GFMBench-API)	0.0897 AUPRC (zero-shot; L2 distance of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Expression (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-expression-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Expression', row 'Evo2', column 'L2 AUPRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Expression, zs-embedding Dataset: Bend Variant Effects Expression test set (GFMBench-API)	0.573 AUROC (zero-shot; L2 distance of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Expression (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-expression-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Expression', row 'Evo2', column 'L2 AUROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Expression, zs-embedding Dataset: Bend Variant Effects Expression test set (GFMBench-API)	0.0887 AUPRC (zero-shot; cosine similarity of embeddings at the SNV position) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Expression (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-expression-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Expression', row 'Evo2', column 'SNV Cos AUPRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API Bend Variant Effects Expression, zs-embedding Dataset: Bend Variant Effects Expression test set (GFMBench-API)	0.557 AUROC (zero-shot; cosine similarity of embeddings at the SNV position) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API Bend Variant Effects Expression (zs-embedding) lit-genomics-20261011-gfmbench-protocol-bend-variant-effects-expression-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'Bend Variant Effects Expression', row 'Evo2', column 'SNV Cos AUROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API BRCA1, zs-ar-llr Dataset: BRCA1 test set (GFMBench-API)	0.533 AUPRC (zero-shot; autoregressive log-likelihood ratio over mean token probabilities) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API BRCA1 (zs-ar-llr) lit-genomics-20261011-gfmbench-protocol-brca1-zs-ar-llr Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 5, task 'BRCA1', row 'Evo2', column 'Mean LLR PRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API BRCA1, zs-ar-llr Dataset: BRCA1 test set (GFMBench-API)	0.741 AUROC (zero-shot; autoregressive log-likelihood ratio over mean token probabilities) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API BRCA1 (zs-ar-llr) lit-genomics-20261011-gfmbench-protocol-brca1-zs-ar-llr Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 5, task 'BRCA1', row 'Evo2', column 'Mean LLR ROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API BRCA1, zs-embedding Dataset: BRCA1 test set (GFMBench-API)	0.54 AUPRC (zero-shot; cosine similarity of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API BRCA1 (zs-embedding) lit-genomics-20261011-gfmbench-protocol-brca1-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'BRCA1', row 'Evo2', column 'Cos AUPRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API BRCA1, zs-embedding Dataset: BRCA1 test set (GFMBench-API)	0.747 AUROC (zero-shot; cosine similarity of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API BRCA1 (zs-embedding) lit-genomics-20261011-gfmbench-protocol-brca1-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'BRCA1', row 'Evo2', column 'Cos AUROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API BRCA1, zs-embedding Dataset: BRCA1 test set (GFMBench-API)	0.575 AUPRC (zero-shot; L2 distance of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API BRCA1 (zs-embedding) lit-genomics-20261011-gfmbench-protocol-brca1-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'BRCA1', row 'Evo2', column 'L2 AUPRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API BRCA1, zs-embedding Dataset: BRCA1 test set (GFMBench-API)	0.775 AUROC (zero-shot; L2 distance of reference and alternate sequence embeddings) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API BRCA1 (zs-embedding) lit-genomics-20261011-gfmbench-protocol-brca1-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'BRCA1', row 'Evo2', column 'L2 AUROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API BRCA1, zs-embedding Dataset: BRCA1 test set (GFMBench-API)	0.204 AUPRC (zero-shot; cosine similarity of embeddings at the SNV position) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API BRCA1 (zs-embedding) lit-genomics-20261011-gfmbench-protocol-brca1-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'BRCA1', row 'Evo2', column 'SNV Cos AUPRC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API BRCA1, zs-embedding Dataset: BRCA1 test set (GFMBench-API)	0.467 AUROC (zero-shot; cosine similarity of embeddings at the SNV position) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API BRCA1 (zs-embedding) lit-genomics-20261011-gfmbench-protocol-brca1-zs-embedding Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 3, task 'BRCA1', row 'Evo2', column 'SNV Cos AUROC'
Configuration: Evo2 (zero-shot, GFMBench-API)	Protocol: GFMBench-API ClinVar Indel Pathogenicity, zs-ar-llr Dataset: ClinVar Indel Pathogenicity test set (GFMBench-API)	0.892 AUPRC (zero-shot; autoregressive log-likelihood ratio over mean token probabilities) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Evo2 on GFMBench-API ClinVar Indel Pathogenicity (zs-ar-llr) lit-genomics-20261011-gfmbench-protocol-clinvar-indel-pathogenicity-zs-ar-llr Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 5, task 'ClinVar Indel Pathogenicity', row 'Evo2', column 'Mean LLR PRC'

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GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Original source · bioRxiv preprint version 2, posted 2026-08-11

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Stable ID: lit-genomics-20261011-gfmbench-config-evo2-zero-shot

areas: dna-genomes
contexts: research
method types: foundation_model
reported name: Evo2
foundation model eligible: true
parameters: 1B parameters; NVIDIA BioNeMo implementation; zero-shot
access reuse: Public checkpoint (Hugging Face; Evo2 via NVIDIA BioNeMo)
source locator: Benchmark Results sections A and B
missing metadata: version: reason: unreported; note: Checkpoint revision not printed; parameter count only
provenance note: Evo2 as evaluated in GFMBench-API, zero-shot.

Related records

configuration of: Evo 2
system: Evo2 on GFMBench-API Bend Variant Effects Disease (zs-ar-llr)
system: Evo2 on GFMBench-API Bend Variant Effects Disease (zs-embedding)
system: Evo2 on GFMBench-API Bend Variant Effects Expression (zs-ar-llr)
system: Evo2 on GFMBench-API Bend Variant Effects Expression (zs-embedding)
system: Evo2 on GFMBench-API BRCA1 (zs-ar-llr)
system: Evo2 on GFMBench-API BRCA1 (zs-embedding)
system: Evo2 on GFMBench-API ClinVar Indel Pathogenicity (zs-ar-llr)
system: Evo2 on GFMBench-API ClinVar Indel Pathogenicity (zs-embedding)
system: Evo2 on GFMBench-API LOL-EVE (zs-ar-llr)
system: Evo2 on GFMBench-API LOL-EVE (zs-embedding)
system: Evo2 on GFMBench-API LRB Variant Effect OMIM (zs-ar-llr)
system: Evo2 on GFMBench-API LRB Variant Effect OMIM (zs-embedding)
system: Evo2 on GFMBench-API Songlab ClinVar (zs-ar-llr)
system: Evo2 on GFMBench-API Songlab ClinVar (zs-embedding)
system: Evo2 on GFMBench-API TraitGym Complex (zs-ar-llr)
system: Evo2 on GFMBench-API TraitGym Complex (zs-embedding)
system: Evo2 on GFMBench-API TraitGym Mendelian (zs-ar-llr)
system: Evo2 on GFMBench-API TraitGym Mendelian (zs-embedding)

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