GPN-MSA_Embeddings.plus.cosine_distance (TraitGym): configuration of GPN-MSA
- Subject
- GPN-MSA_Embeddings.plus.cosine_distance (TraitGym)
- Configuration of
- GPN-MSA
The source names this setup GPN-MSA, the alignment-based model, not the single-sequence GPN family it was linked to before.
Evidence
Source checking verifies the cited claim or transcription. It does not establish independent reproduction.
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.
14 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Claimed field links:configuration_of:gfm-guides-20261014-gpnmsa-model-gpn-msa Context-only references | GPN-MSA: an alignment-based DNA language model for genome-wide variant effect prediction (bioRxiv v2) Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: bioRxiv v2, posted 2024-04-06 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of the PDF bytes as downloaded 2026-10-14T12:02:16Z. bioRxiv rewrites the XMP dates and document IDs, the Info ModDate and the trailer /ID on download, so a re-download does not reproduce the hash; the review found a fresh copy of the same length differing only in those 51 bytes, with an identical pdftotext -layout text layer. |
| Claimed field links:configuration_of:gfm-guides-20261014-gpnmsa-model-gpn-msa Context-only references | TraitGym official metrics: AUPRC by chromosome, weighted average (Hugging Face dataset songlab/TraitGym) Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Hugging Face dataset revision 1fde19555fe8c0a55b1382bdf4c6f7082209f566 (last modified 2025-03-25); 156 metric CSVs under {dataset}/AUPRC_by_chrom_weighted_average/all/ | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of a JSON bundle listing every retrieved CSV with its path, its own SHA-256 and its bytes (artifacts/traitgym-metrics-bundle.json.gz) |
| Previous value regulatory-variant-20261009-model-gpn Context-only references | GPN-MSA: an alignment-based DNA language model for genome-wide variant effect prediction (bioRxiv v2) Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: bioRxiv v2, posted 2024-04-06 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of the PDF bytes as downloaded 2026-10-14T12:02:16Z. bioRxiv rewrites the XMP dates and document IDs, the Info ModDate and the trailer /ID on download, so a re-download does not reproduce the hash; the review found a fresh copy of the same length differing only in those 51 bytes, with an identical pdftotext -layout text layer. |
| Previous value regulatory-variant-20261009-model-gpn Context-only references | TraitGym official metrics: AUPRC by chromosome, weighted average (Hugging Face dataset songlab/TraitGym) Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Hugging Face dataset revision 1fde19555fe8c0a55b1382bdf4c6f7082209f566 (last modified 2025-03-25); 156 metric CSVs under {dataset}/AUPRC_by_chrom_weighted_average/all/ | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of a JSON bundle listing every retrieved CSV with its path, its own SHA-256 and its bytes (artifacts/traitgym-metrics-bundle.json.gz) |
| Source location Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Context-only references | GPN-MSA: an alignment-based DNA language model for genome-wide variant effect prediction (bioRxiv v2) Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: bioRxiv v2, posted 2024-04-06 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of the PDF bytes as downloaded 2026-10-14T12:02:16Z. bioRxiv rewrites the XMP dates and document IDs, the Info ModDate and the trailer /ID on download, so a re-download does not reproduce the hash; the review found a fresh copy of the same length differing only in those 51 bytes, with an identical pdftotext -layout text layer. |
| Source location Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Context-only references | TraitGym official metrics: AUPRC by chromosome, weighted average (Hugging Face dataset songlab/TraitGym) Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Hugging Face dataset revision 1fde19555fe8c0a55b1382bdf4c6f7082209f566 (last modified 2025-03-25); 156 metric CSVs under {dataset}/AUPRC_by_chrom_weighted_average/all/ | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of a JSON bundle listing every retrieved CSV with its path, its own SHA-256 and its bytes (artifacts/traitgym-metrics-bundle.json.gz) |
| Target id gfm-guides-20261014-gpnmsa-model-gpn-msa Context-only references | GPN-MSA: an alignment-based DNA language model for genome-wide variant effect prediction (bioRxiv v2) Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: bioRxiv v2, posted 2024-04-06 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of the PDF bytes as downloaded 2026-10-14T12:02:16Z. bioRxiv rewrites the XMP dates and document IDs, the Info ModDate and the trailer /ID on download, so a re-download does not reproduce the hash; the review found a fresh copy of the same length differing only in those 51 bytes, with an identical pdftotext -layout text layer. |
| Target id gfm-guides-20261014-gpnmsa-model-gpn-msa Context-only references | TraitGym official metrics: AUPRC by chromosome, weighted average (Hugging Face dataset songlab/TraitGym) Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Hugging Face dataset revision 1fde19555fe8c0a55b1382bdf4c6f7082209f566 (last modified 2025-03-25); 156 metric CSVs under {dataset}/AUPRC_by_chrom_weighted_average/all/ | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of a JSON bundle listing every retrieved CSV with its path, its own SHA-256 and its bytes (artifacts/traitgym-metrics-bundle.json.gz) |
| Description The source names this setup GPN-MSA, the alignment-based model, not the single-sequence GPN family it was linked to before. Context-only references | GPN-MSA: an alignment-based DNA language model for genome-wide variant effect prediction (bioRxiv v2) Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: bioRxiv v2, posted 2024-04-06 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of the PDF bytes as downloaded 2026-10-14T12:02:16Z. bioRxiv rewrites the XMP dates and document IDs, the Info ModDate and the trailer /ID on download, so a re-download does not reproduce the hash; the review found a fresh copy of the same length differing only in those 51 bytes, with an identical pdftotext -layout text layer. |
| Description The source names this setup GPN-MSA, the alignment-based model, not the single-sequence GPN family it was linked to before. Context-only references | TraitGym official metrics: AUPRC by chromosome, weighted average (Hugging Face dataset songlab/TraitGym) Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Hugging Face dataset revision 1fde19555fe8c0a55b1382bdf4c6f7082209f566 (last modified 2025-03-25); 156 metric CSVs under {dataset}/AUPRC_by_chrom_weighted_average/all/ | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of a JSON bundle listing every retrieved CSV with its path, its own SHA-256 and its bytes (artifacts/traitgym-metrics-bundle.json.gz) |
Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
2 source records and release history
- GPN-MSA: an alignment-based DNA language model for genome-wide variant effect prediction (bioRxiv v2) · Original source · bioRxiv v2, posted 2024-04-06
- TraitGym official metrics: AUPRC by chromosome, weighted average (Hugging Face dataset songlab/TraitGym) · Original source · Hugging Face dataset revision 1fde19555fe8c0a55b1382bdf4c6f7082209f566 (last modified 2025-03-25); 156 metric CSVs under {dataset}/AUPRC_by_chrom_weighted_average/all/
Technical metadata and extraction receipts
Stable ID: identity-20261014-f0dfa0618b2b177d2e17
- areas
- dna-genomes
- method types
- foundation_model
- field
- links:configuration_of:gfm-guides-20261014-gpnmsa-model-gpn-msa
- target id
- gfm-guides-20261014-gpnmsa-model-gpn-msa
- previous value
- regulatory-variant-20261009-model-gpn
- source locator
- Configuration name as printed in its source (GPN-MSA_Embeddings.plus.cosine_distance); GPN-MSA identity from gfm-guides-20261014-gpnmsa-source-biorxiv-v2 (Abstract) and gfm-guides-20261014-gpnmsa-source-gpn-msa-doc
- review
- method: scope-review; method note: Checked the subject and target records, their source_ids, profiles and linked configurations in the store, and the cited sources.; reviewer: claude; reviewer note: Claude (Opus 5.5) research agent, independent of the extractor; no human review claimed; date: 2026-10-14; note: Accepted in the independent review of 2026-10-14. See docs/reviews/2026-10-14-gfm-guide-evidence-review.md.