Published comparison transcribed from the pinned source; not reproduced.
1 evaluation · 2 results. Different protocols are not a single leaderboard.
Protocol: GFMBench-API LRB Variant Effect OMIM, zs-mlm-llr · Dataset: LRB Variant Effect OMIM test set (GFMBench-API)
Sorted by AUPRC (zero-shot; masked log-likelihood ratio) (higher is better). The best value in each column is highlighted. Decimals are rounded for display; each value links to the printed value and its source.
| Tested configuration | AUPRC (zero-shot; masked log-likelihood ratio) | AUROC (zero-shot; masked log-likelihood ratio) |
|---|---|---|
| DNABERT-2 (zero-shot, GFMBench-API)Evaluation | 0.0019 | 0.477 |
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: DNABERT-2 (zero-shot, GFMBench-API) | Protocol: GFMBench-API LRB Variant Effect OMIM, zs-mlm-llr Dataset: LRB Variant Effect OMIM test set (GFMBench-API) | 0.0019 AUPRC (zero-shot; masked log-likelihood ratio) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2 on GFMBench-API LRB Variant Effect OMIM (zs-mlm-llr) lit-genomics-20261011-gfmbench-protocol-lrb-variant-effect-omim-zs-mlm-llr Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 4, task 'LRB Variant Effect OMIM', row 'DNABERT-2', column 'Msk LLR PRC' |
| Configuration: DNABERT-2 (zero-shot, GFMBench-API) | Protocol: GFMBench-API LRB Variant Effect OMIM, zs-mlm-llr Dataset: LRB Variant Effect OMIM test set (GFMBench-API) | 0.477 AUROC (zero-shot; masked log-likelihood ratio) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2 on GFMBench-API LRB Variant Effect OMIM (zs-mlm-llr) lit-genomics-20261011-gfmbench-protocol-lrb-variant-effect-omim-zs-mlm-llr Aggregation: Not reported GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models · Table 4, task 'LRB Variant Effect OMIM', row 'DNABERT-2', column 'Msk LLR ROC' |
Source checking is not independent reproduction. Release 2026-10-22-1b7cf027e4f6.
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Release 2026-10-22-1b7cf027e4f6 · Evidence verified: Not verified
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GFMBench-API LRB Variant Effect OMIM, zs-mlm-llr
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18 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Comparison: adaptation zero-shot Context-only references | GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models Table 4, task 'LRB Variant Effect OMIM', model 'DNABERT-2' Version: bioRxiv preprint version 2, posted 2026-08-11 | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: aggregation Not reported Context-only references | GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models Table 4, task 'LRB Variant Effect OMIM', model 'DNABERT-2' Version: bioRxiv preprint version 2, posted 2026-08-11 | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: budget Not reported Context-only references | GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models Table 4, task 'LRB Variant Effect OMIM', model 'DNABERT-2' Version: bioRxiv preprint version 2, posted 2026-08-11 | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: dataset version Not reported Context-only references | GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models Table 4, task 'LRB Variant Effect OMIM', model 'DNABERT-2' Version: bioRxiv preprint version 2, posted 2026-08-11 | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: inputs DNA sequence windows; task-specific context length Context-only references | GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models Table 4, task 'LRB Variant Effect OMIM', model 'DNABERT-2' Version: bioRxiv preprint version 2, posted 2026-08-11 | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: metric implementation GFMBench-API task metrics Context-only references | GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models Table 4, task 'LRB Variant Effect OMIM', model 'DNABERT-2' Version: bioRxiv preprint version 2, posted 2026-08-11 | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: population Not reported Context-only references | GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models Table 4, task 'LRB Variant Effect OMIM', model 'DNABERT-2' Version: bioRxiv preprint version 2, posted 2026-08-11 | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: protocol id lit-genomics-20261011-gfmbench-protocol-lrb-variant-effect-omim-zs-mlm-llr Context-only references | GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models Table 4, task 'LRB Variant Effect OMIM', model 'DNABERT-2' Version: bioRxiv preprint version 2, posted 2026-08-11 | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: split Test split Context-only references | GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models Table 4, task 'LRB Variant Effect OMIM', model 'DNABERT-2' Version: bioRxiv preprint version 2, posted 2026-08-11 | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Origin independent_paper Context-only references | GFMBench-API: A Standardized Interface for Benchmarking Genomic Foundation Models Table 4, task 'LRB Variant Effect OMIM', model 'DNABERT-2' Version: bioRxiv preprint version 2, posted 2026-08-11 | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
Stable ID: lit-genomics-20261011-gfmbench-eval-dnabert-2-zero-shot-lrb-variant-effect-omim-zs-mlm-llr