Configuration

Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)

Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1): Regime S (supervised pretraining); evaluation 1% eval (evaluated with 1% of the training set); context column '≈524 k'.

7 evaluations · 7 results

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Evaluations and results

7 evaluations · 7 results. Different protocols are not a single leaderboard.

Sorted by Spearman (GUANinE v1.1 test set) (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	Spearman (GUANinE v1.1 test set)
Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)Evaluation	GUANinE v1.1 gpra-d, Spearman rho x100 (Table 2), GUANinE gpra-d test set	75.2 (best in column)
Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)Evaluation	GUANinE v1.1 cons30, Spearman rho x100 (Table 2), GUANinE cons30 test set	71.5
Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)Evaluation	GUANinE v1.1 gpra-c, Spearman rho x100 (Table 2), GUANinE gpra-c test set	71.5
Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)Evaluation	GUANinE v1.1 dnase-propensity, Spearman rho x100 (Table 2), GUANinE dnase-propensity test set	70.7
Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)Evaluation	GUANinE v1.1 cons100, Spearman rho x100 (Table 2), GUANinE cons100 test set	59.7
Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)Evaluation	GUANinE v1.1 ccre-propensity, Spearman rho x100 (Table 2), GUANinE ccre-propensity test set	57.7
Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)Evaluation	GUANinE v1.1 cadd-snv, Spearman rho x100 (Table 3), GUANinE cadd-snv test set	21

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Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)	Protocol: GUANinE v1.1 cadd-snv, Spearman rho x100 (Table 3) Dataset: GUANinE cadd-snv test set	21 Spearman (GUANinE v1.1 test set) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Borzoi on GUANinE cadd-snv lit-genomics-20261011-guanine-protocol-cadd-snv Aggregation: Not reported GUANinE v1.1 reveals complementarity of supervised and genomic language models · Table 3, row 'Borzoi', column 'cadd-snv' (ρ)
Configuration: Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)	Protocol: GUANinE v1.1 ccre-propensity, Spearman rho x100 (Table 2) Dataset: GUANinE ccre-propensity test set	57.7 Spearman (GUANinE v1.1 test set) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Borzoi on GUANinE ccre-propensity lit-genomics-20261011-guanine-protocol-ccre-propensity Aggregation: Not reported GUANinE v1.1 reveals complementarity of supervised and genomic language models · Table 2, row 'Borzoi', column 'ccre-propensity' (ρ)
Configuration: Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)	Protocol: GUANinE v1.1 cons100, Spearman rho x100 (Table 2) Dataset: GUANinE cons100 test set	59.7 Spearman (GUANinE v1.1 test set) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Borzoi on GUANinE cons100 lit-genomics-20261011-guanine-protocol-cons100 Aggregation: Not reported GUANinE v1.1 reveals complementarity of supervised and genomic language models · Table 2, row 'Borzoi', column 'cons100' (ρ)
Configuration: Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)	Protocol: GUANinE v1.1 cons30, Spearman rho x100 (Table 2) Dataset: GUANinE cons30 test set	71.5 Spearman (GUANinE v1.1 test set) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Borzoi on GUANinE cons30 lit-genomics-20261011-guanine-protocol-cons30 Aggregation: Not reported GUANinE v1.1 reveals complementarity of supervised and genomic language models · Table 2, row 'Borzoi', column 'cons30' (ρ)
Configuration: Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)	Protocol: GUANinE v1.1 dnase-propensity, Spearman rho x100 (Table 2) Dataset: GUANinE dnase-propensity test set	70.7 Spearman (GUANinE v1.1 test set) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Borzoi on GUANinE dnase-propensity lit-genomics-20261011-guanine-protocol-dnase-propensity Aggregation: Not reported GUANinE v1.1 reveals complementarity of supervised and genomic language models · Table 2, row 'Borzoi', column 'dnase-propensity' (ρ)
Configuration: Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)	Protocol: GUANinE v1.1 gpra-c, Spearman rho x100 (Table 2) Dataset: GUANinE gpra-c test set	71.5 Spearman (GUANinE v1.1 test set) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Borzoi on GUANinE gpra-c lit-genomics-20261011-guanine-protocol-gpra-c Aggregation: Not reported GUANinE v1.1 reveals complementarity of supervised and genomic language models · Table 2, row 'Borzoi', column 'gpra-c' (ρ)
Configuration: Borzoi (1% eval (evaluated with 1% of the training set), GUANinE v1.1)	Protocol: GUANinE v1.1 gpra-d, Spearman rho x100 (Table 2) Dataset: GUANinE gpra-d test set	75.2 Spearman (GUANinE v1.1 test set) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Borzoi on GUANinE gpra-d lit-genomics-20261011-guanine-protocol-gpra-d Aggregation: Not reported GUANinE v1.1 reveals complementarity of supervised and genomic language models · Table 2, row 'Borzoi', column 'gpra-d' (ρ)

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

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GUANinE v1.1 reveals complementarity of supervised and genomic language models · Original source · Bioinformatics 2026, btag427 (issue date 2026-08-01); PMC13501288 full-text XML

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Technical metadata and extraction receipts

Stable ID: lit-genomics-20261011-guanine-config-borzoi-1pct

areas: dna-genomes
contexts: research
method types: supervised_machine_learning
reported name: Borzoi
foundation model eligible: false
parameters: Regime S (supervised pretraining); evaluation 1% eval (evaluated with 1% of the training set); context column '≈524 k'
source locator: Table 2 row 'Borzoi', columns Reg., Eval. and Context
access reuse: Not stated in the source; see the model's own release
missing metadata: version: reason: unreported; note: Only the printed row label identifies the checkpoint
provenance note: Borzoi as evaluated in GUANinE v1.1.

Related records

configuration of: Borzoi
system: Borzoi on GUANinE cadd-snv
system: Borzoi on GUANinE ccre-propensity
system: Borzoi on GUANinE cons100
system: Borzoi on GUANinE cons30
system: Borzoi on GUANinE dnase-propensity
system: Borzoi on GUANinE gpra-c
system: Borzoi on GUANinE gpra-d

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