Strengths and considerations
No source-reviewed explanatory claims are recorded here yet.
model · method
AlphaGenome distilled all-fold student
AlphaGenome distilled all-fold student. This is the configuration evaluated in the Nature paper, not an identification of the current hosted API revision.
AlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar VariantsRelated family profile: AlphaGenome. This page retains the exact record and its evaluation context.
At a glance
Explanatory profile: limited source coverage · Automated source review, 2026-09-17. Review applies to the cited claims; unresolved fields are listed below. Numerical results retain their own review status.
| Property | Description and evidence |
|---|---|
| Evaluated system | AlphaGenome distilled all-fold studentAlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants |
| Checkpoint artifact | Not established for these paper scores; no released checkpoint is inferred. · Needs further source reviewAlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants |
| Evaluation scope | Paper-evaluated AlphaGenome configurationAlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants |
| Model type | Not extracted or verified for this record. |
| Inputs | Not extracted or verified for this record. |
| Outputs | Not extracted or verified for this record. |
| Parameters | Not extracted or verified for this record. |
| Training data | Not extracted or verified for this record. |
| Context limits | Not extracted or verified for this record. |
| Access | Not extracted or verified for this record. |
| Code licence | Not extracted or verified for this record. |
| Weights licence | Not extracted or verified for this record. |
How it works
Evaluated configuration
AlphaGenome distilled all-fold student with the composite splicing scorer; uses splice-site, site-usage and junction predictions. This is an author-reported variant pipeline, not a base-family score. Score each variant from its predicted splicing changes and compare with the selected ClinVar pathogenicity labels.
AlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar VariantsBenchmarks and results
Release 2026-09-17-a757f4af4277 · 5 evaluations · 5 metric rows. Different protocols are not a single leaderboard.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| AlphaGenome distilled all-fold student: Splice-site-region variants splicing-based classification Model: AlphaGenome distilled all-fold student · Benchmark: Splice-site-region variants splicing-based classification (AlphaGenome paper) · Dataset: Splice-site-region variants splicing-based classification: evaluated data subset Score each variant from its predicted splicing changes and compare with the selected ClinVar pathogenicity labels. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.57 auprc_max_abs_track_aggregation Unit: dimensionless · Direction: higher Aggregation: auPRC in the category, retaining its own class prevalence and sampling scheme. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 4 Variant performan'!M4 Source checking is not independent reproduction. |
| AlphaGenome distilled all-fold student: Zero-shot GTEx splicing-outlier prediction Model: AlphaGenome distilled all-fold student · Benchmark: Zero-shot GTEx splicing-outlier prediction (AlphaGenome paper) · Dataset: Zero-shot GTEx splicing-outlier prediction: evaluated data subset Evaluate the sequence-derived scores directly on the held-out variants. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.22 auprc Unit: dimensionless · Direction: higher Aggregation: Pooled auPRC across GTEx tissues after assigning positive variants their observed tissues and negatives tissues sampled to match the positive tissue distribution. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 4 Variant performan'!M6 Source checking is not independent reproduction. |
| AlphaGenome distilled all-fold student: Splicing-QTL causality Model: AlphaGenome distilled all-fold student · Benchmark: Splicing-QTL causality (AlphaGenome paper) · Dataset: Splicing-QTL causality: evaluated data subset Compare predicted splicing effects for causal sQTLs and matched negatives; keep the wide and proximal splice-distance analyses distinct. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.76 tissue_weighted_mean_auprc Unit: dimensionless · Direction: higher Aggregation: auPRC per tissue, averaged with variant-count weights. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 4 Variant performan'!M5 Source checking is not independent reproduction. |
| AlphaGenome distilled all-fold student: Deep intronic and synonymous variants splicing-based classification Model: AlphaGenome distilled all-fold student · Benchmark: Deep intronic and synonymous variants splicing-based classification (AlphaGenome paper) · Dataset: Deep intronic and synonymous variants splicing-based classification: evaluated data subset Score each variant from its predicted splicing changes and compare with the selected ClinVar pathogenicity labels. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.66 auprc_max_abs_track_aggregation Unit: dimensionless · Direction: higher Aggregation: auPRC in the category, retaining its own class prevalence and sampling scheme. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 4 Variant performan'!M3 Source checking is not independent reproduction. |
| AlphaGenome distilled all-fold student: Missense variants splicing-based classification Model: AlphaGenome distilled all-fold student · Benchmark: Missense variants splicing-based classification (AlphaGenome paper) · Dataset: Missense variants splicing-based classification: evaluated data subset Score each variant from its predicted splicing changes and compare with the selected ClinVar pathogenicity labels. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.18 auprc_max_abs_track_aggregation Unit: dimensionless · Direction: higher Aggregation: auPRC in the category, retaining its own class prevalence and sampling scheme. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 4 Variant performan'!M2 Source checking is not independent reproduction. |
Strengths and limitations
Limitations and conditions
- The publication result does not establish equivalence to another checkpoint or hosted service.AlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants
Profile review details
Primary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction.
Stable record: alphagenome-2026-model-ccc061de2e862810Evidence table
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.
21 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Evaluated system AlphaGenome distilled all-fold student Individual claims | alphagenome: Journal full-text XML 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved page snapshot; no immutable publisher revision supplied | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction. Field: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Evaluated system AlphaGenome distilled all-fold student Individual claims | AlphaGenome Nature 2026 supplementary methods 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Supplement to Nature version of record, 28 January 2026; content hash pinned | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction. Field: Source artifact SHA-256: Hash scope: SHA-256 of exact publisher PDF bytes Format: original_pdf |
| Evaluated system AlphaGenome distilled all-fold student Individual claims | AlphaGenome Nature 2026 supplementary comparison tables 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature version of record, 28 January 2026 | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction. Field: Source artifact SHA-256: Hash scope: SHA-256 of exact retrieved original artifact bytes Format: xlsx |
| Checkpoint artifact Not established for these paper scores; no released checkpoint is inferred. Individual claims | alphagenome: Journal full-text XML 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved page snapshot; no immutable publisher revision supplied | unextracted automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction. Field: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Checkpoint artifact Not established for these paper scores; no released checkpoint is inferred. Individual claims | AlphaGenome Nature 2026 supplementary methods 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Supplement to Nature version of record, 28 January 2026; content hash pinned | unextracted automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction. Field: Source artifact SHA-256: Hash scope: SHA-256 of exact publisher PDF bytes Format: original_pdf |
| Checkpoint artifact Not established for these paper scores; no released checkpoint is inferred. Individual claims | AlphaGenome Nature 2026 supplementary comparison tables 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature version of record, 28 January 2026 | unextracted automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction. Field: Source artifact SHA-256: Hash scope: SHA-256 of exact retrieved original artifact bytes Format: xlsx |
| Evaluation scope Paper-evaluated AlphaGenome configuration Individual claims | alphagenome: Journal full-text XML 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved page snapshot; no immutable publisher revision supplied | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction. Field: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Evaluation scope Paper-evaluated AlphaGenome configuration Individual claims | AlphaGenome Nature 2026 supplementary methods 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Supplement to Nature version of record, 28 January 2026; content hash pinned | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction. Field: Source artifact SHA-256: Hash scope: SHA-256 of exact publisher PDF bytes Format: original_pdf |
| Evaluation scope Paper-evaluated AlphaGenome configuration Individual claims | AlphaGenome Nature 2026 supplementary comparison tables 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature version of record, 28 January 2026 | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction. Field: Source artifact SHA-256: Hash scope: SHA-256 of exact retrieved original artifact bytes Format: xlsx |
| Limitation The publication result does not establish equivalence to another checkpoint or hosted service. Individual claims | alphagenome: Journal full-text XML 'Suppl Table 4 Variant performan'!A2:P2; Supplementary Methods p.30, Chromosome Splits for Variant Benchmarks; Supplementary Methods pp.30–31, ClinVar Variants Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved page snapshot; no immutable publisher revision supplied | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction. Field: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
Sources and history
Release 2026-09-17-a757f4af4277 · Record review: needs review
- AlphaGenome Nature 2026 supplementary comparison tables · Original source · Nature version of record, 28 January 2026
- AlphaGenome Nature 2026 supplementary methods · Original source · Supplement to Nature version of record, 28 January 2026; content hash pinned
- alphagenome: Journal full-text XML · Original source · Retrieved page snapshot; no immutable publisher revision supplied
Technical metadata and extraction receipts
Stable ID: alphagenome-2026-model-ccc061de2e862810
- areas
- dna-genomes
- entity level
- method
- configuration type
- paper_evaluation
- version
- AlphaGenome distilled all-fold student
Related records
- family: AlphaGenome
- model: AlphaGenome distilled all-fold student: Missense variants splicing-based classification
- model: AlphaGenome distilled all-fold student: Deep intronic and synonymous variants splicing-based classification
- model: AlphaGenome distilled all-fold student: Splicing-QTL causality
- model: AlphaGenome distilled all-fold student: Zero-shot GTEx splicing-outlier prediction
- model: AlphaGenome distilled all-fold student: Splice-site-region variants splicing-based classification
- subject: AlphaGenome distilled all-fold student: family