Strengths and considerations
No source-reviewed explanatory claims are recorded here yet.
Configuration
AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head
AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head. This is the configuration evaluated in the Nature paper, not an identification of the current hosted API revision.
Sources (3)
AlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track PredictionsRelated profile: AlphaGenome. This page retains the exact record and its evaluation context.
At a glance
Key specifications have not been extracted for this record. See the linked evaluation and sources for the reported setup.
limited source coverage · Automated source review, 2026-09-17. All specifications and missing details
Evaluations and results
Release 2026-09-17-d277315f7d76 · 6 evaluations · 6 metric rows. Different protocols are not a single leaderboard.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: CAGE track prediction at 32 bp Configuration: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching headProtocol: CAGE track prediction at 32 bp (AlphaGenome paper)Dataset subset: CAGE track prediction at 32 bp: evaluated data subset Align predicted and experimental values on the same 32-bp tracks and test intervals. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.74 pearsonr Unit: correlation · Direction: higher Aggregation: Pearson correlation; group summaries derive from individual track correlations. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 3 Track performance'!K18 Source checking is not independent reproduction. |
| AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: histone ChIP-seq track prediction at 32 bp Configuration: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching headProtocol: histone ChIP-seq track prediction at 32 bp (AlphaGenome paper)Dataset subset: histone ChIP-seq track prediction at 32 bp: evaluated data subset Align predicted and experimental values on the same 32-bp tracks and test intervals. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.69 pearsonr Unit: correlation · Direction: higher Aggregation: Pearson correlation; group summaries derive from individual track correlations. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 3 Track performance'!K34 Source checking is not independent reproduction. |
| AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: DNase track prediction at 32 bp Configuration: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching headProtocol: DNase track prediction at 32 bp (AlphaGenome paper)Dataset subset: DNase track prediction at 32 bp: evaluated data subset Align predicted and experimental values on the same 32-bp tracks and test intervals. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.86 pearsonr Unit: correlation · Direction: higher Aggregation: Pearson correlation; group summaries derive from individual track correlations. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 3 Track performance'!K25 Source checking is not independent reproduction. |
| AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: TF ChIP-seq track prediction at 32 bp Configuration: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching headProtocol: TF ChIP-seq track prediction at 32 bp (AlphaGenome paper)Dataset subset: TF ChIP-seq track prediction at 32 bp: evaluated data subset Align predicted and experimental values on the same 32-bp tracks and test intervals. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.55 pearsonr Unit: correlation · Direction: higher Aggregation: Pearson correlation; group summaries derive from individual track correlations. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 3 Track performance'!K37 Source checking is not independent reproduction. |
| AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: RNA-seq track prediction at 32 bp Configuration: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching headProtocol: RNA-seq track prediction at 32 bp (AlphaGenome paper)Dataset subset: RNA-seq track prediction at 32 bp: evaluated data subset Align predicted and experimental values on the same 32-bp tracks and test intervals. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.78 pearsonr Unit: correlation · Direction: higher Aggregation: Pearson correlation; group summaries derive from individual track correlations. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 3 Track performance'!K12 Source checking is not independent reproduction. |
| AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: ATAC track prediction at 32 bp Configuration: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching headProtocol: ATAC track prediction at 32 bp (AlphaGenome paper)Dataset subset: ATAC track prediction at 32 bp: evaluated data subset Align predicted and experimental values on the same 32-bp tracks and test intervals. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.57 pearsonr Unit: correlation · Direction: higher Aggregation: Pearson correlation; group summaries derive from individual track correlations. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 3 Track performance'!K31 Source checking is not independent reproduction. |
How it works
Evaluated configuration
AlphaGenome trained on Borzoi fold-1, then fine-tuned with an additional 32-bp head using Borzoi TFRecords at their original resolution and scaling. Align predicted and experimental values on the same 32-bp tracks and test intervals.
Sources (3)
AlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track PredictionsStrengths and limitations
Limitations and conditions
- The publication result does not establish equivalence to another checkpoint or hosted service.
Sources (3)
AlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions
Profile review details
Primary-source transcription and separate automated source review. No human sign-off or independent experimental reproduction.
Stable record: alphagenome-2026-model-53fb68780fb91c60Specifications
Inputs, training, access and other details
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 Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching headSources (3)AlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions |
| Checkpoint artifact | Not established for these paper scores; no released checkpoint is inferred. · Needs further source reviewSources (3)AlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions |
| Evaluation scope | Paper-evaluated AlphaGenome configurationSources (3)AlphaGenome Nature 2026 supplementary comparison tables; AlphaGenome Nature 2026 supplementary methods; alphagenome: Journal full-text XML · 'Suppl Table 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions |
| 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. |
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.
21 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Evaluated system AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head Individual claims | alphagenome: Journal full-text XML 'Suppl Table 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions 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 Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head Individual claims | AlphaGenome Nature 2026 supplementary methods 'Suppl Table 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions 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 Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head Individual claims | AlphaGenome Nature 2026 supplementary comparison tables 'Suppl Table 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions 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 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions 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 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions 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 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions 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 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions 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 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions 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 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions 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 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions 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-d277315f7d76 · Record review: needs review
3 source records and release history
- 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-53fb68780fb91c60
- areas
- dna-genomes
- entity level
- method
- configuration type
- paper_evaluation
- version
- AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head
- legacy kinds
- model
- entity classification
- review date: 2026-09-17; rationale: This source-scoped entry preserves the method/configuration actually named in an evaluation. It is neither a global family identity nor proof of an immutable checkpoint; the linked evaluation retains adaptation, fitting and scoring details.; source ids: source-alphagenome-nature2026-tables; source-alphagenome-nature2026-supplementary-methods; evidence-official-56e5abfb5f12f1cd3b20; source locator: 'Suppl Table 3 Track performance'!A12:N12; Supplementary Methods p.24, Benchmarking Against Borzoi Track Predictions; ambiguities: Configuration means the source-labelled evaluated identity. It does not establish missing checkpoint hashes, default settings or equivalence to same-named records in other papers.
Related records
- family: AlphaGenome
- model: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: ATAC track prediction at 32 bp
- model: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: TF ChIP-seq track prediction at 32 bp
- model: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: histone ChIP-seq track prediction at 32 bp
- model: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: CAGE track prediction at 32 bp
- model: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: DNase track prediction at 32 bp
- model: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: RNA-seq track prediction at 32 bp
- subject: AlphaGenome Borzoi-fold-1 model fine-tuned with 32 bp Borzoi-matching head: family