rewire.itbenchmarks
← Back to results
Task

BEACON SPL: Splice site prediction

Splice site prediction. Multi-class Cls at nucleotide level, scored with Top-k ACC. Dataset SpliceAI; train/validation/test 144,628/18,078/16,505.

17 evaluations · 17 results

Overview

Splice site prediction. Multi-class Cls at nucleotide level, scored with Top-k ACC. Dataset SpliceAI; train/validation/test 144,628/18,078/16,505.

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

Results

Each comparison retains its reviewed evaluation scope, dataset and metric. Results are shown without a pooled ranking.

BEACON SPL: Splice site prediction

top_k_accuracy (percent) · Higher values are better.

BEACON SPL: Splice site prediction · SpliceAI (BEACON split)

Evidence origin: Author-reported evaluation.

BEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,column(SPL)
  • The Literature SOTA row is excluded: those numbers come from other papers under their own protocols.
  • Metrics differ between tasks, so these figures cannot be averaged into one RNA score.
Comparison details and limitations

Every method in BEACON Table 3 on Splice site prediction, scored with Top-k ACC on SpliceAI with the split 144,628/18,078/16,505.

  • Author-reported numbers, source checked but not independently reproduced.

Automated source review: 2026-09-18. Numerical source review does not establish independent reproduction.

Dots show point estimates. Whiskers show only explicitly defined uncertainty (standard deviation, standard error or a labelled interval); their definitions remain in Table. Unresolved uncertainty is not plotted. Differences do not establish statistical significance.

Showing 12 of 17 matching rows.

Tested configuration
0255075100
Reported score
  1. Splice-MS51050.55(0.49)
  2. Splice-MS102448.52(0.49)
  3. Splice-H51044.80(1.93)
  4. UTRBERT-3mer44.24(0.53)
  5. UTRBERT-4mer42.04(0.53)
  6. UTRBERT-5mer39.19(0.37)
  7. UTRBERT-6mer38.58(2.72)
  8. RNA-MSM38.33(0.76)
  9. BEACON-B37.43(1.43)
  10. UTR-LM-TE&EL37.35(5.48)
  11. BEACON-B51237.24(1.09)
  12. LSTM36.66(1.83)

Methods and evaluation design

Procedure, tasks and evaluated configurations

Evaluation design

Benchmarks bring together tasks and protocols. A task describes the biological question; a protocol defines a particular test.

Benchmarks

These source-backed links do not make different protocols or scores interchangeable.

Recorded evaluations

Each evaluation records what was tested and under which conditions.

Explore all linked results

Run 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

Evidence

Source checking verifies the cited claim or transcription. It does not establish independent reproduction.

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.

1 evidence row matching the loaded filters

Claims, original sources and review scope · Release 2026-09-29-06401fd5b220
Property and statementOriginal source and locationReview and provenance
Relationship: part of
discovery-benchmark-beacon
Individual claims		BEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2)

Original source ↗

Table1,p.6,row(SPL)

Version: v2, 12 December 2024
Retrieved: 2026-09-18

source checked

automated source review · 2026-09-18

Audit details

Primary-source transcription with no human sign-off and no independent reproduction.

Field: links:part_of:discovery-benchmark-beacon

Claim: beacon-association-spl

Source artifact SHA-256: 1370d75fe591bb8f994bc67f100a1a3fd557a62b9edb962b21f2fb038e9dea16

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

All evidence (CSV)All evidence (JSONL)How to read the evidence

Sources and history

View linked audit checks and correction history

Release 2026-09-29-06401fd5b220 · Record review: source checked

1 source records and release historyDownload this release
Technical metadata and extraction receipts

Stable ID: beacon-task-spl

areas
rna-transcriptomes
tasks
Splice site prediction
metric
Top-k ACC
metric direction
higher
task type
Multi-class Cls
rna level
Nucleotide
dataset
SpliceAI
splits
144,628/18,078/16,505
source locator
Table1,p.6,row(SPL)
comparison panels
id: beacon-panel-spl; title: BEACON SPL: Splice site prediction; protocol id: beacon-task-spl; dataset id: beacon-dataset-spliceai; metric: top_k_accuracy; unit: percent; direction: higher; result ids: beacon-result-cnn-spl-top-k-accuracy; beacon-result-resnet-spl-top-k-accuracy; beacon-result-lstm-spl-top-k-accuracy; beacon-result-rna-fm-spl-top-k-accuracy; beacon-result-rnabert-spl-top-k-accuracy; beacon-result-rna-msm-spl-top-k-accuracy; beacon-result-splice-h510-spl-top-k-accuracy; beacon-result-splice-ms510-spl-top-k-accuracy; beacon-result-splice-ms1024-spl-top-k-accuracy; beacon-result-utr-lm-mrl-spl-top-k-accuracy; beacon-result-utr-lm-te-and-el-spl-top-k-accuracy; beacon-result-utrbert-3mer-spl-top-k-accuracy; beacon-result-utrbert-4mer-spl-top-k-accuracy; beacon-result-utrbert-5mer-spl-top-k-accuracy; beacon-result-utrbert-6mer-spl-top-k-accuracy; beacon-result-beacon-b-spl-top-k-accuracy; beacon-result-beacon-b512-spl-top-k-accuracy; source ids: source-beacon-arxiv-2406-10391; source locator: Table3,p.8,column(SPL); context: Every method in BEACON Table 3 on Splice site prediction, scored with Top-k ACC on SpliceAI with the split 144,628/18,078/16,505.; caveats: Author-reported numbers, source checked but not independently reproduced.; The Literature SOTA row is excluded: those numbers come from other papers under their own protocols.; Metrics differ between tasks, so these figures cannot be averaged into one RNA score.; review: method: automated_source_review; date: 2026-09-18
Related records

Suggest a correction