Borzoi-matched RNA-seq coverage aggregated over GENCODE v46 exons with strand matching; retain genes with at least half their exons in a test interval.
2 evaluations · 4 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Borzoi (paper Table 3) | Protocol: RNA expression correlation across genes (AlphaGenome paper) Dataset subset: RNA expression correlation across genes: evaluated data subset | 0.765 Pearson (gene tpm, across genes) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceBorzoi (paper Table 3): RNA expression correlation across genes Compute per-track cross-gene correlation on raw log-expression and, separately, normalized/mean-centred expression. Aggregation: Pearson correlation across genes. Preserve raw versus normalized Table3 rows; the inspected task paragraph does not specify the weighting used to reduce all correlations to the table scalar. AlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 3 Track performance'!J13 |
| Configuration: Borzoi (paper Table 3) | Protocol: RNA expression correlation across genes (AlphaGenome paper) Dataset subset: RNA expression correlation across genes: evaluated data subset | 0.449 Pearson (normalised gene tpm, across genes) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceBorzoi (paper Table 3): RNA expression correlation across genes Compute per-track cross-gene correlation on raw log-expression and, separately, normalized/mean-centred expression. Aggregation: Pearson correlation across genes. Preserve raw versus normalized Table3 rows; the inspected task paragraph does not specify the weighting used to reduce all correlations to the table scalar. AlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 3 Track performance'!J15 |
| Configuration: AlphaGenome Borzoi-fold-1 model fine-tuned with base-resolution Borzoi RNA-seq head | Protocol: RNA expression correlation across genes (AlphaGenome paper) Dataset subset: RNA expression correlation across genes: evaluated data subset | 0.52 Pearson (normalised gene tpm, across genes) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceCompute per-track cross-gene correlation on raw log-expression and, separately, normalized/mean-centred expression. Aggregation: Pearson correlation across genes. Preserve raw versus normalized Table3 rows; the inspected task paragraph does not specify the weighting used to reduce all correlations to the table scalar. AlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 3 Track performance'!K15 |
| Configuration: AlphaGenome Borzoi-fold-1 model fine-tuned with base-resolution Borzoi RNA-seq head | Protocol: RNA expression correlation across genes (AlphaGenome paper) Dataset subset: RNA expression correlation across genes: evaluated data subset | 0.8 Pearson (gene tpm, across genes) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceCompute per-track cross-gene correlation on raw log-expression and, separately, normalized/mean-centred expression. Aggregation: Pearson correlation across genes. Preserve raw versus normalized Table3 rows; the inspected task paragraph does not specify the weighting used to reduce all correlations to the table scalar. AlphaGenome Nature 2026 supplementary comparison tables · 'Suppl Table 3 Track performance'!K13 |
Source checking is not independent reproduction. Release 2026-11-02-a7f03c9e55a5.
0 of 4 readiness checks met. These checks assess whether the evidence supports a reproducible investigation; a source-checked score alone does not meet them.
Release 2026-11-02-a7f03c9e55a5 · Evidence verified: Not verified
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18 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Reported dataset counts None recorded Context-only references | alphagenome: Journal full-text XML No field-specific location recorded Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved page snapshot; no immutable publisher revision supplied | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Reported dataset counts None recorded Context-only references | AlphaGenome Nature 2026 supplementary methods No field-specific location recorded 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 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of exact publisher PDF bytes Format: original_pdf |
| Reported dataset counts None recorded Context-only references | AlphaGenome Nature 2026 supplementary comparison tables No field-specific location recorded Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature version of record, 28 January 2026 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of exact retrieved original artifact bytes Format: xlsx |
| Source dataset label Borzoi RNA-seq tracks at base resolution Context-only references | alphagenome: Journal full-text XML No field-specific location recorded Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved page snapshot; no immutable publisher revision supplied | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Source dataset label Borzoi RNA-seq tracks at base resolution Context-only references | AlphaGenome Nature 2026 supplementary methods No field-specific location recorded 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 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of exact publisher PDF bytes Format: original_pdf |
| Source dataset label Borzoi RNA-seq tracks at base resolution Context-only references | AlphaGenome Nature 2026 supplementary comparison tables No field-specific location recorded Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature version of record, 28 January 2026 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of exact retrieved original artifact bytes Format: xlsx |
| Source subset scope Held-out human genomic intervals under the relevant fold. General training follows Borzoi folds, extending intervals to the AlphaGenome context and removing validation/test windows overlapping training after extension; use the comparison-specific split below rather than the variant chromosome split. Borzoi fold-1 RNA comparison. Context-only references | alphagenome: Journal full-text XML No field-specific location recorded Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved page snapshot; no immutable publisher revision supplied | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Source subset scope Held-out human genomic intervals under the relevant fold. General training follows Borzoi folds, extending intervals to the AlphaGenome context and removing validation/test windows overlapping training after extension; use the comparison-specific split below rather than the variant chromosome split. Borzoi fold-1 RNA comparison. Context-only references | AlphaGenome Nature 2026 supplementary methods No field-specific location recorded 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 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of exact publisher PDF bytes Format: original_pdf |
| Source subset scope Held-out human genomic intervals under the relevant fold. General training follows Borzoi folds, extending intervals to the AlphaGenome context and removing validation/test windows overlapping training after extension; use the comparison-specific split below rather than the variant chromosome split. Borzoi fold-1 RNA comparison. Context-only references | AlphaGenome Nature 2026 supplementary comparison tables No field-specific location recorded Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature version of record, 28 January 2026 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of exact retrieved original artifact bytes Format: xlsx |
| Description Borzoi-matched RNA-seq coverage aggregated over GENCODE v46 exons with strand matching; retain genes with at least half their exons in a test interval. Context-only references | alphagenome: Journal full-text XML No field-specific location recorded Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved page snapshot; no immutable publisher revision supplied | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
Release 2026-11-02-a7f03c9e55a5 · Record review: needs review
Stable ID: alphagenome-2026-t3-dataset-7