Held-out test data for the DNALONGBENCH Transcription initiation signal prediction task.
5 evaluations · 30 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Caduceus-Ph (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.109 Pearson (average over TISP conditions as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-Ph on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-Ph', column 'Avg' |
| Configuration: Caduceus-Ph (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.088 Pearson (EC (ENCODE CAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-Ph on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-Ph', column 'EC' |
| Configuration: Caduceus-Ph (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.088 Pearson (ER (ENCODE RAMPAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-Ph on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-Ph', column 'ER' |
| Configuration: Caduceus-Ph (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.114 Pearson (FC (FANTOM CAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-Ph on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-Ph', column 'FC' |
| Configuration: Caduceus-Ph (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.097 Pearson (GC (GRO-cap)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-Ph on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-Ph', column 'GC' |
| Configuration: Caduceus-Ph (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.154 Pearson (PC (PRO-cap)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-Ph on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-Ph', column 'PC' |
| Configuration: Caduceus-PS (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.108 Pearson (average over TISP conditions as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-PS on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-PS', column 'Avg' |
| Configuration: Caduceus-PS (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.088 Pearson (EC (ENCODE CAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-PS on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-PS', column 'EC' |
| Configuration: Caduceus-PS (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.09 Pearson (ER (ENCODE RAMPAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-PS on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-PS', column 'ER' |
| Configuration: Caduceus-PS (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.113 Pearson (FC (FANTOM CAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-PS on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-PS', column 'FC' |
| Configuration: Caduceus-PS (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.102 Pearson (GC (GRO-cap)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-PS on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-PS', column 'GC' |
| Configuration: Caduceus-PS (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.156 Pearson (PC (PRO-cap)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceCaduceus-PS on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Caduceus-PS', column 'PC' |
| Configuration: CNN (DNALONGBENCH, TISP) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.042 Pearson (average over TISP conditions as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcelit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'CNN', column 'Avg' |
| Configuration: CNN (DNALONGBENCH, TISP) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.038 Pearson (EC (ENCODE CAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcelit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'CNN', column 'EC' |
| Configuration: CNN (DNALONGBENCH, TISP) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.043 Pearson (ER (ENCODE RAMPAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcelit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'CNN', column 'ER' |
| Configuration: CNN (DNALONGBENCH, TISP) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.029 Pearson (FC (FANTOM CAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcelit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'CNN', column 'FC' |
| Configuration: CNN (DNALONGBENCH, TISP) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.037 Pearson (GC (GRO-cap)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcelit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'CNN', column 'GC' |
| Configuration: CNN (DNALONGBENCH, TISP) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.066 Pearson (PC (PRO-cap)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcelit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'CNN', column 'PC' |
| Configuration: Puffin-D (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.733 Pearson (average over TISP conditions as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceExpert Model on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Expert Model', column 'Avg' |
| Configuration: Puffin-D (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.71 Pearson (EC (ENCODE CAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceExpert Model on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Expert Model', column 'EC' |
| Configuration: Puffin-D (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.749 Pearson (ER (ENCODE RAMPAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceExpert Model on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Expert Model', column 'ER' |
| Configuration: Puffin-D (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.808 Pearson (FC (FANTOM CAGE)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceExpert Model on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Expert Model', column 'FC' |
| Configuration: Puffin-D (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.624 Pearson (GC (GRO-cap)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceExpert Model on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Expert Model', column 'GC' |
| Configuration: Puffin-D (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.774 Pearson (PC (PRO-cap)) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceExpert Model on DNALONGBENCH TISP lit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'Expert Model', column 'PC' |
| Configuration: HyenaDNA (DNALONGBENCH) | Protocol: DNALONGBENCH Transcription initiation signal prediction (Table 6) Dataset: DNALONGBENCH Transcription initiation signal prediction test set | 0.132 Pearson (average over TISP conditions as printed) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcelit-genomics-20261011-dnalongbench-protocol-tisp Aggregation: Not reported DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks · Table 6, row 'HyenaDNA', column 'Avg' |
Source checking is not independent reproduction. Release 2026-10-23-5347695500ed.
0 of 4 readiness checks met. These checks assess whether the evidence supports a reproducible investigation; a source-checked score alone does not meet them.
Release 2026-10-23-5347695500ed · Evidence verified: Not verified
Exact outcomes, predictions, identifiers and evaluator are connected.
Missing or unresolved evidence
Verified: Not verified
Replay evidence includes annotations and an assessment of dependence. Unknown independence permits descriptive analysis only.
Missing or unresolved evidence
Verified: Not verified
A pinned recipe describes the inputs, environment and resource requirements.
Missing or unresolved evidence
Verified: Not verified
Separate data and exposure records support an independent test.
Missing or unresolved evidence
Verified: Not verified
Readiness describes the evidence in this release. Availability on your computer is checked separately when an investigation runs. Existing data exposure can prevent independent validation even when files are available.
No verified artifact manifest is connected to this record yet. The gaps above identify what is needed before analysis can begin.
A dataset supplies biological observations. The evaluation protocol defines how those observations are split, used and scored.
Source checking verifies the cited claim or transcription. It does not establish independent reproduction.
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.
4 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Source location Methods 'Benchmark dataset' for Transcription initiation signal prediction; Table 2 Context-only references | DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks Methods 'Benchmark dataset' for Transcription initiation signal prediction; Table 2 Version: Nature Communications 16, published 2025-11-18; PMC12627797 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Split Held-out test set as defined by DNALONGBENCH Context-only references | DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks Methods 'Benchmark dataset' for Transcription initiation signal prediction; Table 2 Version: Nature Communications 16, published 2025-11-18; PMC12627797 full-text XML | 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 Held-out test data for the DNALONGBENCH Transcription initiation signal prediction task. Context-only references | DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks Methods 'Benchmark dataset' for Transcription initiation signal prediction; Table 2 Version: Nature Communications 16, published 2025-11-18; PMC12627797 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Name DNALONGBENCH Transcription initiation signal prediction test set Context-only references | DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks Methods 'Benchmark dataset' for Transcription initiation signal prediction; Table 2 Version: Nature Communications 16, published 2025-11-18; PMC12627797 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Release 2026-10-23-5347695500ed · Record review: source checked
Stable ID: lit-genomics-20261011-dnalongbench-data-tisp