Protocol

Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1)

Zero-shot classification of splice-altering versus other variants in the SpliceVarDB 'Both' (coding and noncoding) SNVs stratum, AUROC and AUPRC.

15 evaluations · 30 results

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.

15 recorded evaluations, 30 metric rows. A comparison chart has not yet been validated for these results. The table retains the individual findings and their sources.

View coverage and remaining gaps across all benchmarks

Results

Results are available, but no reviewed comparison panel is linked in this release.

All evaluations

15 evaluations · 30 results. Different protocols are not a single leaderboard.

Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) · Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)

Sorted by AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) (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	AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs)	AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs)
SpliceAI (Evo 2 paper variant effect evaluations)Evaluation	0.974 (best in column)	0.961 (best in column)
Pangolin (Evo 2 paper variant effect evaluations)Evaluation	0.924	0.903
CADD (Evo 2 paper variant effect evaluations)Evaluation	0.874	0.832
Evo 2 7B base (Evo 2 paper variant effect evaluations)Evaluation	0.873	0.827
Evo 2 7B (Evo 2 paper variant effect evaluations)Evaluation	0.871	0.827
Evo 2 40B base (Evo 2 paper variant effect evaluations)Evaluation	0.855	0.818
Evo 2 40B (Evo 2 paper variant effect evaluations)Evaluation	0.85	0.815
GPN-MSA (Evo 2 paper variant effect evaluations)Evaluation	0.846	0.79
PhyloP 470 (Evo 2 paper variant effect evaluations)Evaluation	0.813	0.772
PhyloP 100 (Evo 2 paper variant effect evaluations)Evaluation	0.806	0.76
PhyloP 447 (Evo 2 paper variant effect evaluations)Evaluation	0.776	0.747
PhyloP 241 (Evo 2 paper variant effect evaluations)Evaluation	0.765	0.75
RNA-FM (Evo 2 paper variant effect evaluations)Evaluation	0.627	0.531
Evo 1 (Evo 2 paper variant effect evaluations)Evaluation	0.621	0.534
NT (Evo 2 paper variant effect evaluations)Evaluation	0.601	0.491

All 30 result rows with coverage, uncertainty and sources

Filter evaluations

Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: CADD (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.874 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source CADD on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J518, row 518: Model 'CADD', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: CADD (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.832 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source CADD on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I518, row 518: Model 'CADD', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: Evo 1 (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.621 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Evo 1 on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J528, row 528: Model 'Evo 1', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: Evo 1 (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.534 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Evo 1 on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I528, row 528: Model 'Evo 1', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: Evo 2 40B base (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.855 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Evo 2 40B base on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J521, row 521: Model 'Evo 2 40B base', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: Evo 2 40B base (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.818 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Evo 2 40B base on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I521, row 521: Model 'Evo 2 40B base', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: Evo 2 40B (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.85 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Evo 2 40B on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J522, row 522: Model 'Evo 2 40B', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: Evo 2 40B (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.815 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Evo 2 40B on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I522, row 522: Model 'Evo 2 40B', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: Evo 2 7B base (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.873 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Evo 2 7B base on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J519, row 519: Model 'Evo 2 7B base', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: Evo 2 7B base (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.827 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Evo 2 7B base on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I519, row 519: Model 'Evo 2 7B base', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: Evo 2 7B (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.871 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Evo 2 7B on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J520, row 520: Model 'Evo 2 7B', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: Evo 2 7B (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.827 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Evo 2 7B on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I520, row 520: Model 'Evo 2 7B', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: GPN-MSA (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.846 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source GPN-MSA on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J523, row 523: Model 'GPN-MSA', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: GPN-MSA (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.79 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source GPN-MSA on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I523, row 523: Model 'GPN-MSA', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: NT (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.601 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source NT on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J530, row 530: Model 'NT', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: NT (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.491 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source NT on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I530, row 530: Model 'NT', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: Pangolin (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.924 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Pangolin on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J517, row 517: Model 'Pangolin', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: Pangolin (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.903 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Pangolin on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I517, row 517: Model 'Pangolin', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: PhyloP 100 (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.806 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source PhyloP 100 on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J525, row 525: Model 'phyloP 100', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: PhyloP 100 (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.76 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source PhyloP 100 on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I525, row 525: Model 'phyloP 100', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: PhyloP 241 (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.765 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source PhyloP 241 on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J526, row 526: Model 'phyloP 241', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: PhyloP 241 (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.75 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source PhyloP 241 on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I526, row 526: Model 'phyloP 241', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: PhyloP 447 (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.776 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source PhyloP 447 on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J527, row 527: Model 'phyloP 447', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'
Configuration: PhyloP 447 (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.747 AUROC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source PhyloP 447 on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell I527, row 527: Model 'phyloP 447', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUROC'
Configuration: PhyloP 470 (Evo 2 paper variant effect evaluations)	Protocol: Zero-shot SpliceVarDB 'Both' (coding and noncoding) SNVs classification (Evo 2 paper, Supplementary Data 1) Dataset: SpliceVarDB experimentally validated splice variants (Brixi et al. 2026)	0.813 AUPRC (zero-shot; SpliceVarDB 'Both' (coding and noncoding) SNVs) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source PhyloP 470 on SpliceVarDB 'Both' (coding and noncoding) SNVs (Evo 2 paper) gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv Aggregation: Not reported Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026); Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Supplementary Data 1 (sheet 'Sheet1') cell J524, row 524: Model 'phyloP 470', Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category '', column 'AUPRC'

Source checking is not independent reproduction. Release 2026-10-22-1b7cf027e4f6.

Methods and evaluation design

Procedure, tasks and evaluated configurations

Recorded evaluations

Each evaluation records what was tested and under which conditions.

Explore all linked results

Baseline coverage

Reference methods help show what a model adds beyond simple controls. We track a null control and a conventional method for each protocol.

0 of 2 active baseline roles have published Rewire measurements in this release. Measurements on a selected protocol do not establish coverage of an entire suite.

No execution recipe linked to this protocol. Recipe availability does not establish a completed evaluation.

Author-reported evaluations: 15

Literature evidence is not a Rewire measurement. Executed but unpublished runs and private review status are not included.

Null control

Proposed control: requires review

Protocol-valid seeded random ranking; no fitting on assay labels

Protocol-specific applicability, permitted inputs, access, split, evaluator and execution requirements need review before implementation or execution.

This is a suggested selection rule, not a validated method or a measured score.

Conventional reference

Proposed control: requires review

Established label-free reference with explicitly permitted sequence/MSA inputs

Protocol-specific applicability, permitted inputs, access, split, evaluator and execution requirements need review before implementation or execution.

This is a suggested selection rule, not a validated method or a measured score.

Protocol coverage CSV (gzip) · Model evaluation matrix (gzip) · Source table (gzip) · Release and checksums (gzip)

Coverage is derived from release 2026-10-22-1b7cf027e4f6. Source citations describe the original records; they do not validate an unreviewed baseline proposal. No results have been generated by this audit.

Run instructions

No runnable recipe has been reviewed for this protocol. Dataset access, model requirements, licences and compute requirements must be checked against its sources before execution.

Strengths, limitations and unresolved questions

Evidence

Source checking verifies the cited claim or transcription. It does not establish independent reproduction.

Evidence table

Inspect claims, sources and review details

Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.

One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.

0 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-22-1b7cf027e4f6
Property and statement	Original source and location	Review and provenance

No evidence rows match these filters. Choose another scope or clear the search.

How to read the evidence

Sources and history

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

3 source records and release history

evo2: Journal full-text XML · Original source · Retrieved page snapshot; no immutable publisher revision supplied
Genome modelling and design across all domains of life with Evo 2: Supplementary Information (Nature 2026) · Original source · Nature 652 (2026), published 2026-03-04; Supplementary Information file 41586_2026_10176_MOESM1_ESM.pdf (73 pages)
Genome modelling and design across all domains of life with Evo 2: Supplementary Data 1, human variant effect prediction results (Nature 2026) · Original source · Nature 652 (2026), published 2026-03-04; Supplementary Data 1 file 41586_2026_10176_MOESM3_ESM.xlsx

Download this release (gzip)

Technical metadata and extraction receipts

Stable ID: gfm-guides-20261014-evo2-brixi2026-protocol-splicevardb-both-snv

areas: dna-genomes
contexts: research
protocol: Score each variant zero-shot (for Evo 2, the log-likelihood of the variant sequence minus that of the reference over an 8,192-bp genomic window around the variant) and compute AUROC and AUPRC for splice-altering versus other variants in the stratum Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV'.
version: As published, Nature 652 (2026), Supplementary Data 1
source locator: Supplementary Data 1 rows with Data 'SpliceVarDB', Genomic_Feature 'Both', Variant_Type 'SNV', Sub_category ''; SI A.3.12 and A.3.14 (pages 13 and 14)
limitations: Positives: 3576 splice-altering; negatives: 2492 other; total 6068 variants (Supplementary Data 1).; No split: every model scores the same variants zero-shot (SI A.3.12: 'For each benchmark, we score the same variants with all models').; Supervised comparators (AlphaMissense, CADD, SpliceAI, Pangolin) may have been trained on overlapping variants; training overlap is not reported.; No uncertainty is reported.

Related records

Suggest a correction