The split of Fulco 2019, Gasperini 2019 and Enformer enhancer set that BEND evaluated on. The upstream dataset release is not catalogued here, so no claim is made that this matches its original splits.
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16 evaluations · 16 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Method: AWD-LSTM | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.03 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceAWD-LSTM on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(AWD-LSTM), column(Enhancer annotation) |
| Method: CNN | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.03 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceCNN on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(CNN), column(Enhancer annotation) |
| Configuration: DNABERT-2 | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.03 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceDNABERT-2 on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(DNABERT-2), column(Enhancer annotation) |
| Configuration: DNABERT | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.03 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceDNABERT on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(DNABERT), column(Enhancer annotation) |
| Configuration: ENFORMER | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.07 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceENFORMER on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(Expert method), column(Enhancer annotation) |
| Configuration: GENA-LM BERT | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.03 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceGENA-LM BERT on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(GENA-LM BERT), column(Enhancer annotation) |
| Configuration: GENA-LM BigBird | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.04 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceGENA-LM BigBird on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(GENA-LM BigBird), column(Enhancer annotation) |
| Configuration: GROVER | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.03 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceGROVER on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(GROVER), column(Enhancer annotation) |
| Configuration: HyenaDNA large | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.03 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceHyenaDNA large on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(HyenaDNA large), column(Enhancer annotation) |
| Configuration: HyenaDNA tiny | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.02 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceHyenaDNA tiny on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(HyenaDNA tiny), column(Enhancer annotation) |
| Configuration: NT-1000G | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.04 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNT-1000G on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(NT-1000G), column(Enhancer annotation) |
| Method: NT-H | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.05 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNT-H on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(NT-H), column(Enhancer annotation) |
| Method: NT-MS | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.06 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNT-MS on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(NT-MS), column(Enhancer annotation) |
| Configuration: NT-V2 | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.05 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNT-V2 on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(NT-V2), column(Enhancer annotation) |
| Configuration: ResNet | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.06 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceResNet on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(ResNet), column(Enhancer annotation) |
| Method: ResNet-LM | Task: BEND ENHANCER: Enhancer annotation Dataset subset: Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) | 0.02 auprc fraction · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceResNet-LM on BEND ENHANCER: Enhancer annotation A downstream head trained on frozen embeddings, except for the expert methods and the fully supervised baselines, which are trained end to end. Metric and splits are from Table 1. Aggregation: Not reported BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Table 3, row(ResNet-LM), column(Enhancer annotation) |
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2 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| description The split of Fulco 2019, Gasperini 2019 and Enformer enhancer set that BEND evaluated on. The upstream dataset release is not catalogued here, so no claim is made that this matches its original splits. Context-only references | BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks No field-specific location recorded Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| name Fulco 2019, Gasperini 2019 and Enformer enhancer set (BEND split) Context-only references | BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks No field-specific location recorded Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
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Release 2026-09-29-06401fd5b220 · Record review: source checked
Stable ID: bend-dataset-fulco-2019-gasperini-2019-and-enformer-enhancer-set