0.55 mean_pearsonr_all
AlphaGenome distilled cell-type-matched DNase scorer, ChromBPNet-matched locus subset: Zero-shot CAGI5 MPRA activity-effect prediction (chrombpnet-matched comparison), mean pearsonr all
- Tested model
- AlphaGenome distilled cell-type-matched DNase scorer, ChromBPNet-matched locus subset
- Model family
- AlphaGenome
- Task or benchmark
- Zero-shot CAGI5 MPRA activity-effect prediction (chrombpnet-matched comparison) (AlphaGenome paper)
- Dataset
- Zero-shot CAGI5 MPRA activity-effect prediction (chrombpnet-matched comparison): evaluated data subset
- Procedure
- Compute locus/context Pearson correlations between predicted and observed effects. The Borzoi strategy uses its reported scoring windows and modified matching; the ChromBPNet comparison excludes the unavailable TERT-GBM context.
- Evaluation
- AlphaGenome distilled cell-type-matched DNase scorer, ChromBPNet-matched locus subset: Zero-shot CAGI5 MPRA activity-effect prediction (chrombpnet-matched comparison)
- Evidence
- Author-reported evaluation · source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 4 Variant performan'!M10
A source-checked result verifies the numerical transcription, not every model or protocol detail. Evaluation metadata: needs review. Source checked does not mean independently reproduced.
Evaluation results
Release 2026-09-17-a757f4af4277 · 1 evaluation · 1 metric row. Different protocols are not a single leaderboard.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| AlphaGenome distilled cell-type-matched DNase scorer, ChromBPNet-matched locus subset: Zero-shot CAGI5 MPRA activity-effect prediction (chrombpnet-matched comparison) Model: AlphaGenome distilled cell-type-matched DNase scorer, ChromBPNet-matched locus subset · Benchmark: Zero-shot CAGI5 MPRA activity-effect prediction (chrombpnet-matched comparison) (AlphaGenome paper) · Dataset: Zero-shot CAGI5 MPRA activity-effect prediction (chrombpnet-matched comparison): evaluated data subset Compute locus/context Pearson correlations between predicted and observed effects. The Borzoi strategy uses its reported scoring windows and modified matching; the ChromBPNet comparison excludes the unavailable TERT-GBM context. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.55 mean_pearsonr_all Unit: correlation · Direction: higher Aggregation: Mean Pearson correlation over the included locus/context comparisons; Table4 rows10 and11 have different AlphaGenome scalars and must remain separate. | Uncertainty: unreported Scored: Not reported · Eligible: Not reported | source checkedAlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 4 Variant performan'!M10 Source checking is not independent reproduction. |
Evidence 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.
1 evidence row matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Reported result 0.55 Individual claims | AlphaGenome Nature 2026 supplementary comparison tables 'Suppl Table 4 Variant performan'!M10 Version: Nature version of record, 28 January 2026 | source checked OOXML extraction and separate automated primary-source review · 2026-09-17 author reported Audit detailsChecked against a second extraction. Fixed-format display and exact stored decimals preserved separately. No experiment rerun. Field: Source artifact SHA-256: Hash scope: SHA-256 of exact retrieved original artifact bytes Format: xlsx Extraction artifact SHA-256: |
Sources and history
Release 2026-09-17-a757f4af4277 · Record review: source checked
- 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-result-a628b4f7c633b08f
- areas
- dna-genomes
- printed value
- 0.55
- printed value basis
- Workbook number format 0.00
- numeric value
- 0.54700000000000004
- raw xml value
- 0.54700000000000004
- workbook number format
- 0.00
- metric
- mean_pearsonr_all
- metric direction
- higher
- unit
- correlation
- aggregation
- Mean Pearson correlation over the included locus/context comparisons; Table4 rows10 and11 have different AlphaGenome scalars and must remain separate.
- uncertainty
- Not reported
- scored count
- Not reported
- eligible count
- Not reported
- source cells
- 'Suppl Table 4 Variant performan'!M10
- source locator
- 'Suppl Table 4 Variant performan'!M10
- review
- method: OOXML extraction and separate automated primary-source review; date: 2026-09-17; artifact sha256: 833cb78b6ae6fe39415cfff296ac00c48d800326139f13eb307531a1cc133154; retrieval url: https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-025-10014-0/MediaObjects/41586_2025_10014_MOESM3_ESM.xlsx; note: Checked against a second extraction. Fixed-format display and exact stored decimals preserved separately. No experiment rerun.
- missing metadata
- uncertainty: unreported; scored count: unextracted; eligible count: unextracted; seeds: unreported
- source warnings
- The same evaluation index 9 has different AlphaGenome results in rows 10/11. Preserve comparator-specific locus/matching protocol; do not deduplicate these AlphaGenome rows.