Protocol

GenBench Human Splice Site Detection

GenBench task Human Splice Site Detection.

Overview

An explanatory profile has not yet been reviewed for this record.

Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.

7 recorded evaluations, 7 metric rows. A comparison chart has not yet been validated for these results. The table retains the individual findings and their sources.

View coverage and remaining gaps across all benchmarks

Results

Results are available, but no reviewed comparison panel is linked in this release.

All evaluations

7 evaluations · 7 results. Different protocols are not a single leaderboard.

Protocol: GenBench Human Splice Site Detection · Dataset: GenBench Human Splice Site Detection

Sorted by Accuracy (task-level value as printed in Table 4) (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	Accuracy (task-level value as printed in Table 4)
NT (GenBench)Evaluation	0.948 (best in column)
GENA-LM (GenBench)Evaluation	0.918
DNABERT2 (GenBench)Evaluation	0.881
DNABERT (GenBench)Evaluation	0.872
Caduceus (GenBench)Evaluation	0.567
CNN (GenBench)Evaluation	0.567
HyenaDNA (GenBench)Evaluation	0.566

All 7 result rows with coverage, uncertainty and sources

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Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Caduceus (GenBench)	Protocol: GenBench Human Splice Site Detection Dataset: GenBench Human Splice Site Detection	0.567 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Caduceus on GenBench Human Splice Site Detection lit-genomics-20261011-genbench-protocol-short-human-splice-site-detection Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Splice Site Detection', column 'Caduceus'; also Table 10
Configuration: CNN (GenBench)	Protocol: GenBench Human Splice Site Detection Dataset: GenBench Human Splice Site Detection	0.567 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNN on GenBench Human Splice Site Detection lit-genomics-20261011-genbench-protocol-short-human-splice-site-detection Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Splice Site Detection', column 'CNN'; also Table 10
Configuration: DNABERT (GenBench)	Protocol: GenBench Human Splice Site Detection Dataset: GenBench Human Splice Site Detection	0.872 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT on GenBench Human Splice Site Detection lit-genomics-20261011-genbench-protocol-short-human-splice-site-detection Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Splice Site Detection', column 'DNABERT'; also Table 10
Configuration: DNABERT2 (GenBench)	Protocol: GenBench Human Splice Site Detection Dataset: GenBench Human Splice Site Detection	0.881 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT2 on GenBench Human Splice Site Detection lit-genomics-20261011-genbench-protocol-short-human-splice-site-detection Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Splice Site Detection', column 'DNABERT2'; also Table 10
Configuration: GENA-LM (GenBench)	Protocol: GenBench Human Splice Site Detection Dataset: GenBench Human Splice Site Detection	0.918 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source GENA-LM on GenBench Human Splice Site Detection lit-genomics-20261011-genbench-protocol-short-human-splice-site-detection Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Splice Site Detection', column 'GENA-LM'; also Table 10
Configuration: HyenaDNA (GenBench)	Protocol: GenBench Human Splice Site Detection Dataset: GenBench Human Splice Site Detection	0.566 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source HyenaDNA on GenBench Human Splice Site Detection lit-genomics-20261011-genbench-protocol-short-human-splice-site-detection Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Splice Site Detection', column 'HyenaDNA'; also Table 10
Configuration: NT (GenBench)	Protocol: GenBench Human Splice Site Detection Dataset: GenBench Human Splice Site Detection	0.948 Accuracy (task-level value as printed in Table 4) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source NT on GenBench Human Splice Site Detection lit-genomics-20261011-genbench-protocol-short-human-splice-site-detection Aggregation: Not reported GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Table 4, row 'Human Splice Site Detection', column 'NT'; also Table 10

Source checking is not independent reproduction. Release 2026-10-22-1b7cf027e4f6.

Methods and evaluation design

Procedure, tasks and evaluated configurations

Recorded evaluations

Each evaluation records what was tested and under which conditions.

Baseline coverage

Reference methods help show what a model adds beyond simple controls. We track a null control and a conventional method for each protocol.

0 of 2 active baseline roles have published Rewire measurements in this release. Measurements on a selected protocol do not establish coverage of an entire suite.

No execution recipe linked to this protocol. Recipe availability does not establish a completed evaluation.

External evaluations: 7

Literature evidence is not a Rewire measurement. Executed but unpublished runs and private review status are not included.

Null control

Proposed control: requires review

Training-set class prior where supervised fitting is permitted

Protocol-specific applicability, permitted inputs, access, split, evaluator and execution requirements need review before implementation or execution.

This is a suggested selection rule, not a validated method or a measured score.

Conventional reference

Proposed control: requires review

Regularised classifier on simple permitted features, or protocol's conventional reference

Protocol-specific applicability, permitted inputs, access, split, evaluator and execution requirements need review before implementation or execution.

This is a suggested selection rule, not a validated method or a measured score.

Protocol coverage CSV (gzip) · Model evaluation matrix (gzip) · Source table (gzip) · Release and checksums (gzip)

Coverage is derived from release 2026-10-22-1b7cf027e4f6. Source citations describe the original records; they do not validate an unreviewed baseline proposal. No results have been generated by this audit.

Run instructions

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Strengths, limitations and unresolved questions

Evidence

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Evidence table

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Claims, original sources and review scope · Release 2026-10-22-1b7cf027e4f6
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Sources and history

Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

1 source record and release history

GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models · Original source · arXiv 2406.01627 version 2

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Technical metadata and extraction receipts

Stable ID: lit-genomics-20261011-genbench-protocol-short-human-splice-site-detection

areas: dna-genomes
contexts: research
protocol: Fine-tuning per dataset; 'Top-1' score as printed (not defined in the source).
version: arXiv v2
metric: accuracy
metric direction: higher
unit: fraction
limitations: 'Top-1' is not defined in the source; no uncertainty printed.
source locator: Table 4

Related records

part of: GenBench
uses data: GenBench Human Splice Site Detection
assessment: Caduceus on GenBench Human Splice Site Detection
assessment: CNN on GenBench Human Splice Site Detection
assessment: DNABERT on GenBench Human Splice Site Detection
assessment: DNABERT2 on GenBench Human Splice Site Detection
assessment: GENA-LM on GenBench Human Splice Site Detection
assessment: HyenaDNA on GenBench Human Splice Site Detection
assessment: NT on GenBench Human Splice Site Detection

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