All ClinVar variants after removing multi-allelic, MNV and unannotated entries and GENCODE v49 validation.
1 evaluation · 1 result. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: EVEE covariance probe on Evo 2 7B layer 27 (Pearce et al. 2026) | Protocol: EVEE Evo 2 embedding extraction compute (Pearce et al. 2026) Dataset: EVEE full ClinVar variant set (4,252,870 variants) | ∼20,000 Accelerator time (Evo 2 7B embedding extraction for 4,252,870 ClinVar variants) hour · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceEVEE Evo 2 7B embedding extraction compute (Pearce et al. 2026) gfm-guide-20261014-protocol-evee-embedding-extraction-compute Aggregation: Not reported Interpretable variant effect prediction from genomic foundation model representations (EVEE), bioRxiv v4 · Methods 'Harvesting', page 8, line 461: 'Extraction used ∼20,000 H100-hours' |
Source checking is not independent reproduction. Release 2026-10-22-1b7cf027e4f6.
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6 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Population 4,252,870 variants: 1,539,596 labelled and 2,716,001 unlabelled (as printed) Context-only references | Interpretable variant effect prediction from genomic foundation model representations (EVEE), bioRxiv v4 Methods 'Full dataset' (page 8) Version: bioRxiv v4, posted 2026-07-11 (v1 posted 2026-04-11) | not individually reviewed No individual claim review recorded Source has a recorded evidence concern. Consult its source page before using the claim. Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of one retrieval of the bioRxiv PDF (2026-10-14T12:02:25Z). bioRxiv stamps the PDF on each download (XMP ModifyDate, MetadataDate, DocumentID and InstanceID, the Info ModDate and the trailer /ID), so later retrievals differ. The extractor's copy was not retained, so the pinned bytes could not be re-verified. The independent reviewer's retrieval on 2026-10-14 (5,466,701 bytes, 26 pages, ModDate D:20261014063735-07'00') had SHA-256 9e2176440dfae6740b9e799796297cdd70b9bd59edb5c0a1e7fcdb5d6978710a; its Figure 1c and 1d match the repository vector PDFs cell for cell in the Overall rows, and the quoted Methods and Competing interests sentences are present. |
| Source location Methods 'Full dataset' (page 8) Context-only references | Interpretable variant effect prediction from genomic foundation model representations (EVEE), bioRxiv v4 Methods 'Full dataset' (page 8) Version: bioRxiv v4, posted 2026-07-11 (v1 posted 2026-04-11) | not individually reviewed No individual claim review recorded Source has a recorded evidence concern. Consult its source page before using the claim. Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of one retrieval of the bioRxiv PDF (2026-10-14T12:02:25Z). bioRxiv stamps the PDF on each download (XMP ModifyDate, MetadataDate, DocumentID and InstanceID, the Info ModDate and the trailer /ID), so later retrievals differ. The extractor's copy was not retained, so the pinned bytes could not be re-verified. The independent reviewer's retrieval on 2026-10-14 (5,466,701 bytes, 26 pages, ModDate D:20261014063735-07'00') had SHA-256 9e2176440dfae6740b9e799796297cdd70b9bd59edb5c0a1e7fcdb5d6978710a; its Figure 1c and 1d match the repository vector PDFs cell for cell in the Overall rows, and the quoted Methods and Competing interests sentences are present. |
| Split Not applicable: embedding extraction covers every variant Context-only references | Interpretable variant effect prediction from genomic foundation model representations (EVEE), bioRxiv v4 Methods 'Full dataset' (page 8) Version: bioRxiv v4, posted 2026-07-11 (v1 posted 2026-04-11) | not individually reviewed No individual claim review recorded Source has a recorded evidence concern. Consult its source page before using the claim. Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of one retrieval of the bioRxiv PDF (2026-10-14T12:02:25Z). bioRxiv stamps the PDF on each download (XMP ModifyDate, MetadataDate, DocumentID and InstanceID, the Info ModDate and the trailer /ID), so later retrievals differ. The extractor's copy was not retained, so the pinned bytes could not be re-verified. The independent reviewer's retrieval on 2026-10-14 (5,466,701 bytes, 26 pages, ModDate D:20261014063735-07'00') had SHA-256 9e2176440dfae6740b9e799796297cdd70b9bd59edb5c0a1e7fcdb5d6978710a; its Figure 1c and 1d match the repository vector PDFs cell for cell in the Overall rows, and the quoted Methods and Competing interests sentences are present. |
| Version ClinVar release 2026-03-21 Context-only references | Interpretable variant effect prediction from genomic foundation model representations (EVEE), bioRxiv v4 Methods 'Full dataset' (page 8) Version: bioRxiv v4, posted 2026-07-11 (v1 posted 2026-04-11) | not individually reviewed No individual claim review recorded Source has a recorded evidence concern. Consult its source page before using the claim. Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of one retrieval of the bioRxiv PDF (2026-10-14T12:02:25Z). bioRxiv stamps the PDF on each download (XMP ModifyDate, MetadataDate, DocumentID and InstanceID, the Info ModDate and the trailer /ID), so later retrievals differ. The extractor's copy was not retained, so the pinned bytes could not be re-verified. The independent reviewer's retrieval on 2026-10-14 (5,466,701 bytes, 26 pages, ModDate D:20261014063735-07'00') had SHA-256 9e2176440dfae6740b9e799796297cdd70b9bd59edb5c0a1e7fcdb5d6978710a; its Figure 1c and 1d match the repository vector PDFs cell for cell in the Overall rows, and the quoted Methods and Competing interests sentences are present. |
| Description All ClinVar variants after removing multi-allelic, MNV and unannotated entries and GENCODE v49 validation. Context-only references | Interpretable variant effect prediction from genomic foundation model representations (EVEE), bioRxiv v4 Methods 'Full dataset' (page 8) Version: bioRxiv v4, posted 2026-07-11 (v1 posted 2026-04-11) | not individually reviewed No individual claim review recorded Source has a recorded evidence concern. Consult its source page before using the claim. Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of one retrieval of the bioRxiv PDF (2026-10-14T12:02:25Z). bioRxiv stamps the PDF on each download (XMP ModifyDate, MetadataDate, DocumentID and InstanceID, the Info ModDate and the trailer /ID), so later retrievals differ. The extractor's copy was not retained, so the pinned bytes could not be re-verified. The independent reviewer's retrieval on 2026-10-14 (5,466,701 bytes, 26 pages, ModDate D:20261014063735-07'00') had SHA-256 9e2176440dfae6740b9e799796297cdd70b9bd59edb5c0a1e7fcdb5d6978710a; its Figure 1c and 1d match the repository vector PDFs cell for cell in the Overall rows, and the quoted Methods and Competing interests sentences are present. |
| Name EVEE full ClinVar variant set (4,252,870 variants) Context-only references | Interpretable variant effect prediction from genomic foundation model representations (EVEE), bioRxiv v4 Methods 'Full dataset' (page 8) Version: bioRxiv v4, posted 2026-07-11 (v1 posted 2026-04-11) | not individually reviewed No individual claim review recorded Source has a recorded evidence concern. Consult its source page before using the claim. Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of one retrieval of the bioRxiv PDF (2026-10-14T12:02:25Z). bioRxiv stamps the PDF on each download (XMP ModifyDate, MetadataDate, DocumentID and InstanceID, the Info ModDate and the trailer /ID), so later retrievals differ. The extractor's copy was not retained, so the pinned bytes could not be re-verified. The independent reviewer's retrieval on 2026-10-14 (5,466,701 bytes, 26 pages, ModDate D:20261014063735-07'00') had SHA-256 9e2176440dfae6740b9e799796297cdd70b9bd59edb5c0a1e7fcdb5d6978710a; its Figure 1c and 1d match the repository vector PDFs cell for cell in the Overall rows, and the quoted Methods and Competing interests sentences are present. |
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
Stable ID: gfm-guide-20261014-data-evee-full-clinvar