reported_finding: feng-dna-fm-20261014-protocol-t3-d-melanogaster-4mc
Reported finding of Feng D.Melanogaster 4mC sequence classification
Baseline CNN trained from scratch on D.Melanogaster 4mC: Supplementary Data 1 lists the DNA foundation models the CNN significantly outperformed (one-sided DeLong p<0.01): Caduceus-Ph, DNABERT-2, GROVER, HyenaDNA, NT-v2. Supplementary Data 2 lists the models that significantly outperformed the CNN: None. The CNN's AUC is not printed, so it has no result record; the foundation-model AUCs are in Table 3.
Descriptive fact transcribed from the pinned source.
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.
12 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Claimed field reported_finding Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: PMC12663285.1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Claimed field reported_finding Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Data 1-6 Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Data 1-6 workbook (MOESM3, .xlsm) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Source location Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: PMC12663285.1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Source location Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Data 1-6 Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Data 1-6 workbook (MOESM3, .xlsm) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Claimed value Baseline CNN trained from scratch on D.Melanogaster 4mC: Supplementary Data 1 lists the DNA foundation models the CNN significantly outperformed (one-sided DeLong p<0.01): Caduceus-Ph, DNABERT-2, GROVER, HyenaDNA, NT-v2. Supplementary Data 2 lists the models that significantly outperformed the CNN: None. The CNN's AUC is not printed, so it has no result record; the foundation-model AUCs are in Table 3. Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: PMC12663285.1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Claimed value Baseline CNN trained from scratch on D.Melanogaster 4mC: Supplementary Data 1 lists the DNA foundation models the CNN significantly outperformed (one-sided DeLong p<0.01): Caduceus-Ph, DNABERT-2, GROVER, HyenaDNA, NT-v2. Supplementary Data 2 lists the models that significantly outperformed the CNN: None. The CNN's AUC is not printed, so it has no result record; the foundation-model AUCs are in Table 3. Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Data 1-6 Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Data 1-6 workbook (MOESM3, .xlsm) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Description Descriptive fact transcribed from the pinned source. Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: PMC12663285.1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Description Descriptive fact transcribed from the pinned source. Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Data 1-6 Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Data 1-6 workbook (MOESM3, .xlsm) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Relationship: subject feng-dna-fm-20261014-protocol-t3-d-melanogaster-4mc Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: PMC12663285.1 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Relationship: subject feng-dna-fm-20261014-protocol-t3-d-melanogaster-4mc Context-only references | Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Data 1-6 Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Nature Communications 16, 10780 (2025); Supplementary Data 1-6 workbook (MOESM3, .xlsm) | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
Release 2026-11-02-a7f03c9e55a5 · Record review: source checked
2 source records and release history
- Benchmarking DNA foundation models for genomic and genetic tasks: Supplementary Data 1-6 · Original source · Nature Communications 16, 10780 (2025); Supplementary Data 1-6 workbook (MOESM3, .xlsm)
- Benchmarking DNA foundation models for genomic and genetic tasks · Original source · PMC12663285.1
Technical metadata and extraction receipts
Stable ID: feng-dna-fm-20261014-claim-cnn-d-melanogaster-4mc
- field
- reported_finding
- value
- Baseline CNN trained from scratch on D.Melanogaster 4mC: Supplementary Data 1 lists the DNA foundation models the CNN significantly outperformed (one-sided DeLong p<0.01): Caduceus-Ph, DNABERT-2, GROVER, HyenaDNA, NT-v2. Supplementary Data 2 lists the models that significantly outperformed the CNN: None. The CNN's AUC is not printed, so it has no result record; the foundation-model AUCs are in Table 3.
- source locator
- Supplementary Data 1 and Supplementary Data 2, row 'D.melanogaster 4mC'
- review
- method: source-hash-verification; deterministic-table-parse; independent-cell-check; method note: Re-downloaded the Supplementary Data workbook and matched the pinned SHA-256. Read sheets 'Data 1' and 'Data 2' with a separate parser (review/signoff.py) and checked both model lists for this row.; reviewer: claude; reviewer note: Independent Claude (Opus 5.5) review agent for PR #157, separate from the extraction agent for issue #142 that built this batch. Automated review only; no human review claimed. Transcription, not reproduction.; reviewed at: 2026-10-14T15:00:00Z; artifact sha256: 4804c801e0e054eca5f776617c18a6a0cb31d6ce3d2a7a52f70e4dda5b3abd7a; retrieval url: https://static-content.springer.com/esm/art%3A10.1038%2Fs41467-025-65823-8/MediaObjects/41467_2025_65823_MOESM3_ESM.xlsm; note: Independent review: both model lists match the workbook row. The CNN's own AUC is not printed.