Datasets
No single dataset is fixed by this guide. Select a linked protocol and its versioned data release.
inapplicable
Task
Long-range regulation
Long-range regulatory evaluation asks whether useful predictions depend on information beyond a short local DNA window.
Sources (2)
frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctionsNo reviewed evaluations are linked here in this release. See the sources and separately identified configurations below.
Overview
Metrics
Use the concrete task’s metric and aggregation; there is no single score for all long-range regulation.
Allowed inputs
Genomic sequences with coordinates, a declared context window and the labels of a specific regulatory task.
Sources (2)
frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctionsEvaluation procedure diagram
How it worksConceptual evaluation workflow
Conceptual task guide. Dataset preparation, parameters and scoring must come from a separately identified protocol.
Sources (2)
frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctionsSource reviewed · Automated source review, 2026-09-16. All specifications and missing details
Results
All evaluations
0 evaluations · 0 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
No evaluations linked in this release.
Source checking is not independent reproduction. Release 2026-09-29-06401fd5b220.
Methods and evaluation design
Procedure, tasks and evaluated configurations
How it works
Choosing an evaluation
A large supported input window is a model capability, not by itself a test of distant regulation. Select a concrete regulatory endpoint and retain genomic coordinates, split membership and permitted context. BEND’s coordinate-based task format illustrates why those details matter. Compare configurations only when their prediction target and available information are explicit.
Sources (2)
frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctionsTask scope
This is a task guide, not a single versioned benchmark protocol. The connected resources provide examples or concrete procedures. A candidate method or proposed control is not evidence that an evaluation has been completed.
Sources (2)
frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctionsRun instructions
No runnable recipe has been reviewed for this task. Dataset access, model requirements, licences and compute requirements must be checked against its sources before execution.
A task describes a biological question. Choose a linked protocol to obtain concrete split and scoring instructions.
Strengths, limitations and unresolved questions
Strengths and limitations
Strengths supported by sources
- Recording context and coordinates makes the intended information advantage inspectable.
Sources (2)
frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions
Limitations and conditions
- This guide does not establish that longer context improves a model, nor does it provide a shared enhancer–gene or contact-map protocol.
Sources (2)
frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions
Profile review details
Reviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol.
Stable record: catalog-task-long-range-regulationSpecifications
Inputs, training, access and other details
Explanatory profile: source reviewed · Automated source review, 2026-09-16. Review applies to the cited claims; unresolved fields are listed below. Numerical results retain their own review status.
| Property | Description and evidence |
|---|---|
| Entity type | Task guide; concrete protocol identities remain separate.Sources (2)frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions |
| Datasets | No single dataset is fixed by this guide. Select a linked protocol and its versioned data release. · Not applicableSources (2)frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions |
| Organisms | No shared organism population is defined at this guide level. Record it for each selected dataset. · Not applicableSources (2)frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions |
| Assays | No single measurement assay is fixed by this guide; the endpoint and assay belong to the selected protocol. · Not applicableSources (2)frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions |
| Splits | No executable split is attached to this task identity. Use the selected protocol’s split manifest. · Not applicableSources (2)frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions |
| Allowed inputs | Genomic sequences with coordinates, a declared context window and the labels of a specific regulatory task.Sources (2)frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions |
| Adaptation | No common fitting regime is imposed here. Keep pretrained, frozen, probed, fine-tuned and conventional methods distinct where applicable. · Not applicableSources (2)frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions |
| Metrics | Use the concrete task’s metric and aggregation; there is no single score for all long-range regulation.Sources (2)frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions |
| Baselines | Matched short-context or task-specific methods can be proposed as controls, but require an explicit protocol and measured results before comparison.Sources (2)frederikkemarin/BEND official source; DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions |
Evidence
Source checking verifies the cited claim or transcription. It does not establish independent reproduction.
Papers and result coverage
Last literature check: 2026-09-17. Dated primary-source discovery and protocol/table screening. Source checking does not mean experimental reproduction. Only separately extracted and independently reviewed numeric batches are publishable.
| Paper or primary resource | Version | Reference |
|---|---|---|
| DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA | NeurIPS 2024 Datasets and Benchmarks Track proceedings | Read source |
| DNALongBench: A Benchmark Suite for Long-Range DNA Prediction Tasks | PMC11741265.1 | Read source |
| BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks | Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256 | Read source |
Historical gaps recorded on 2026-09-17
- complete comparable numeric result batch: Specific candidate tables and protocol boundaries are documented; no graph values or incomplete winner-only selection are converted into publishable rows.
Search and extraction details
primary protocol reviewed
Searches
- DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA 10.52202/079017-1981
- DNALongBench: A Benchmark Suite for Long-Range DNA Prediction Tasks 10.1101/2025.01.06.631595
Evidence locations
- DART main Results; DNALongBench Tables 3–5; BEND Table 3
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.
34 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Diagram caption Conceptual task guide. Dataset preparation, parameters and scoring must come from a separately identified protocol. Individual claims | DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: NeurIPS 2024 Datasets and Benchmarks Track proceedings | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram caption Conceptual task guide. Dataset preparation, parameters and scoring must come from a separately identified protocol. Individual claims | frederikkemarin/BEND official source BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ac6e80c75e09d83cf47a7b4bcf0e44599c5706cf | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Diagram steps
| DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: NeurIPS 2024 Datasets and Benchmarks Track proceedings | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Diagram steps
| frederikkemarin/BEND official source BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ac6e80c75e09d83cf47a7b4bcf0e44599c5706cf | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram title Conceptual evaluation workflow Individual claims | DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: NeurIPS 2024 Datasets and Benchmarks Track proceedings | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram title Conceptual evaluation workflow Individual claims | frederikkemarin/BEND official source BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ac6e80c75e09d83cf47a7b4bcf0e44599c5706cf | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Entity type Task guide; concrete protocol identities remain separate. Individual claims | DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: NeurIPS 2024 Datasets and Benchmarks Track proceedings | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Entity type Task guide; concrete protocol identities remain separate. Individual claims | frederikkemarin/BEND official source BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ac6e80c75e09d83cf47a7b4bcf0e44599c5706cf | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Datasets No single dataset is fixed by this guide. Select a linked protocol and its versioned data release. Individual claims | DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: NeurIPS 2024 Datasets and Benchmarks Track proceedings | inapplicable automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Datasets No single dataset is fixed by this guide. Select a linked protocol and its versioned data release. Individual claims | frederikkemarin/BEND official source BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ac6e80c75e09d83cf47a7b4bcf0e44599c5706cf | inapplicable automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
View linked audit checks and correction history
Release 2026-09-29-06401fd5b220 · Record review: discovered
7 source records and release history
- Evo 2 official resource · Original source · Not reported
- AlphaGenome official resource · Original source · Not reported
- BEND: Benchmarking DNA Language Models on Biologically Meaningful Tasks · Original source · Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
- DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · Original source · NeurIPS 2024 Datasets and Benchmarks Track proceedings
- DNALongBench: A Benchmark Suite for Long-Range DNA Prediction Tasks · Original source · PMC11741265.1
- frederikkemarin/BEND official source · Original source · ac6e80c75e09d83cf47a7b4bcf0e44599c5706cf
- DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA · Original source · NeurIPS 2024 Datasets and Benchmarks Track proceedings
Technical metadata and extraction receipts
Stable ID: catalog-task-long-range-regulation
- areas
- dna-genomes
- entity level
- task
- version
- Not reported
- task
- Long-range regulation
- scope note
- Predict gene-expression or chromatin effects from long-context DNA sequence.
- benchmark research
- review date: 2026-09-17; status: primary_protocol_reviewed; primary sources: evidence-expansion-dart-eval-regulatory-2024-e5aee5b1; evidence-expansion-dnalongbench-2025-fa440a17; evidence-expansion-bend-final-f709b6be; inspected locators: DART main Results; DNALongBench Tables 3–5; BEND Table 3; searched queries: DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA 10.52202/079017-1981; DNALongBench: A Benchmark Suite for Long-Range DNA Prediction Tasks 10.1101/2025.01.06.631595; gaps: complete comparable numeric result batch: Specific candidate tables and protocol boundaries are documented; no graph values or incomplete winner-only selection are converted into publishable rows.; claim scope: Dated primary-source discovery and protocol/table screening. Source checking does not mean experimental reproduction. Only separately extracted and independently reviewed numeric batches are publishable.
- historical missing metadata
- protocol version: not_yet_extracted
- metadata review scope
- historical_missing_metadata preserves the original discovery state. Current descriptive evidence and missingness are recorded in profile.facts; numerical-result review is separate.
- legacy kinds
- benchmark
- entity classification
- review date: 2026-09-17; rationale: This record identifies the biological prediction question or a suite-specific task, rather than a uniquely fixed evaluated procedure. Preserve its task identity and leave split, model adaptation and scoring details on linked protocols/evaluations.; source ids: src-discovery-frederikkemarin-bend; dart-eval-regulatory-2024; source locator: BEND README: Data format and training/evaluating supervised models; DART-Eval paper: task and context distinctions; ambiguities: None recorded