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Task

BEACON ncRNA: Non-coding RNA family classification

Non-coding RNA family classification. Multi-class Cls at sequence level, scored with ACC. Dataset Noorul's ncRNA set; train/validation/test 5,679/650/2,400.

17 evaluations · 17 metric rows

Overview

Non-coding RNA family classification. Multi-class Cls at sequence level, scored with ACC. Dataset Noorul's ncRNA set; train/validation/test 5,679/650/2,400.

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

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.

Published comparisons

Explore the results reported under one evaluation protocol. Each figure keeps its source, dataset and metric together; it is not a ranking across studies. The pooled view gathers every source table that reports the same metric and names what it does not hold constant.

BEACON ncRNA: Non-coding RNA family classification

accuracy (percent) · Higher values are better for this metric.

Every method in BEACON Table 3 on Non-coding RNA family classification, scored with ACC on Noorul's ncRNA set with the split 5,679/650/2,400.

Evaluation protocol · Noorul's ncRNA set (BEACON split)

  1. CNN · Method · Author-reported evaluation88.62(0.71)
  2. ResNet · Method · Author-reported evaluation88.33(1.22)
  3. LSTM · Method · Author-reported evaluation88.78(0.10)
  4. RNA-FM · Configuration · Author-reported evaluation96.81(0.061)
  5. RNABERT · Configuration · Author-reported evaluation68.95(7.285)
  6. RNA-MSM · Configuration · Author-reported evaluation84.85(0.266)
  7. Splice-H510 · Configuration · Author-reported evaluation95.92(0.666)
  8. Splice-MS510 · Configuration · Author-reported evaluation95.87(0.364)
  9. Splice-MS1024 · Configuration · Author-reported evaluation96.05(0.777)
  10. UTR-LM-MRL · Configuration · Author-reported evaluation89.97(0.617)
  11. UTR-LM-TE&EL · Configuration · Author-reported evaluation81.33(8.551)
  12. UTRBERT-3mer · Configuration · Author-reported evaluation92.88(0.379)
  13. UTRBERT-4mer · Configuration · Author-reported evaluation94.32(0.946)
  14. UTRBERT-5mer · Configuration · Author-reported evaluation93.04(0.367)
  15. UTRBERT-6mer · Configuration · Author-reported evaluation93.12(0.168)
  16. BEACON-B · Configuration · Author-reported evaluation94.63(0.16)
  17. BEACON-B512 · Configuration · Author-reported evaluation94.99(0.21)

Source order is preserved. Plotted marks show point estimates; uncertainty, where reported, is retained in the printed values and table. Differences do not establish statistical significance.

BEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,column(ncRNA)
Values, uncertainty and evidence
accuracy: original source values
Tested entityPrinted valueUncertaintyEvidence
CNN · Method88.62(0.71) percenttype: standard_deviation; value: 0.71Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(CNN),column(ncRNA)
ResNet · Method88.33(1.22) percenttype: standard_deviation; value: 1.22Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(ResNet),column(ncRNA)
LSTM · Method88.78(0.10) percenttype: standard_deviation; value: 0.10Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(LSTM),column(ncRNA)
RNA-FM · Configuration96.81(0.061) percenttype: standard_deviation; value: 0.061Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(RNA-FM),column(ncRNA)
RNABERT · Configuration68.95(7.285) percenttype: standard_deviation; value: 7.285Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(RNABERT),column(ncRNA)
RNA-MSM · Configuration84.85(0.266) percenttype: standard_deviation; value: 0.266Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(RNA-MSM),column(ncRNA)
Splice-H510 · Configuration95.92(0.666) percenttype: standard_deviation; value: 0.666Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(Splice-H510),column(ncRNA)
Splice-MS510 · Configuration95.87(0.364) percenttype: standard_deviation; value: 0.364Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(Splice-MS510),column(ncRNA)
Splice-MS1024 · Configuration96.05(0.777) percenttype: standard_deviation; value: 0.777Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(Splice-MS1024),column(ncRNA)
UTR-LM-MRL · Configuration89.97(0.617) percenttype: standard_deviation; value: 0.617Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTR-LM-MRL),column(ncRNA)
UTR-LM-TE&EL · Configuration81.33(8.551) percenttype: standard_deviation; value: 8.551Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTR-LM-TE&EL),column(ncRNA)
UTRBERT-3mer · Configuration92.88(0.379) percenttype: standard_deviation; value: 0.379Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTRBERT-3mer),column(ncRNA)
UTRBERT-4mer · Configuration94.32(0.946) percenttype: standard_deviation; value: 0.946Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTRBERT-4mer),column(ncRNA)
UTRBERT-5mer · Configuration93.04(0.367) percenttype: standard_deviation; value: 0.367Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTRBERT-5mer),column(ncRNA)
UTRBERT-6mer · Configuration93.12(0.168) percenttype: standard_deviation; value: 0.168Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTRBERT-6mer),column(ncRNA)
BEACON-B · Configuration94.63(0.16) percenttype: standard_deviation; value: 0.16Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(BEACON-B),column(ncRNA)
BEACON-B512 · Configuration94.99(0.21) percenttype: standard_deviation; value: 0.21Author-reported evaluation · source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(BEACON-B512),column(ncRNA)
Scope and limitations
  • 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.

Source transcription and grouping reviewed by automated source review on 2026-09-18. These experiments were not independently reproduced by rewire.

Tested entities and results

Release 2026-09-17-1a18ca2c038a · 17 evaluations · 17 metric rows. Different protocols are not a single leaderboard. Where several source tables report the same metric, the published comparisons above offer a pooled view that names what it does not hold constant.

Results grouped by the exact reported evaluation
Metric and findingCoverage and uncertaintyEvidence
BEACON-B on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

94.63(0.16)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.16

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(BEACON-B),column(ncRNA)

Source checking is not independent reproduction.

BEACON-B512 on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

94.99(0.21)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.21

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(BEACON-B512),column(ncRNA)

Source checking is not independent reproduction.

CNN on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

88.62(0.71)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.71

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(CNN),column(ncRNA)

Source checking is not independent reproduction.

LSTM on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

88.78(0.10)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.10

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(LSTM),column(ncRNA)

Source checking is not independent reproduction.

ResNet on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

88.33(1.22)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 1.22

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(ResNet),column(ncRNA)

Source checking is not independent reproduction.

RNA-FM on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

96.81(0.061)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.061

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(RNA-FM),column(ncRNA)

Source checking is not independent reproduction.

RNA-MSM on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

84.85(0.266)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.266

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(RNA-MSM),column(ncRNA)

Source checking is not independent reproduction.

RNABERT on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

68.95(7.285)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 7.285

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(RNABERT),column(ncRNA)

Source checking is not independent reproduction.

Splice-H510 on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

95.92(0.666)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.666

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(Splice-H510),column(ncRNA)

Source checking is not independent reproduction.

Splice-MS1024 on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

96.05(0.777)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.777

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(Splice-MS1024),column(ncRNA)

Source checking is not independent reproduction.

Splice-MS510 on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

95.87(0.364)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.364

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(Splice-MS510),column(ncRNA)

Source checking is not independent reproduction.

UTR-LM-MRL on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

89.97(0.617)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.617

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTR-LM-MRL),column(ncRNA)

Source checking is not independent reproduction.

UTR-LM-TE&EL on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

81.33(8.551)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 8.551

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTR-LM-TE&EL),column(ncRNA)

Source checking is not independent reproduction.

UTRBERT-3mer on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

92.88(0.379)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.379

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTRBERT-3mer),column(ncRNA)

Source checking is not independent reproduction.

UTRBERT-4mer on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

94.32(0.946)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.946

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTRBERT-4mer),column(ncRNA)

Source checking is not independent reproduction.

UTRBERT-5mer on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

93.04(0.367)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.367

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTRBERT-5mer),column(ncRNA)

Source checking is not independent reproduction.

UTRBERT-6mer on BEACON ncRNA: Non-coding RNA family classification

BEACON harness, fixed downstream head per task. Train/validation/test 5,679/650/2,400; dataset Noorul's ncRNA set.

Author-reported evaluation · Evaluation metadata: source checked

93.12(0.168)% accuracy

Unit: percent · Direction: higher

Uncertainty: type: standard deviation; value: 0.168

Scored: Not reported · Eligible: Not reported

source checkedBEACON: Benchmark for Comprehensive RNA Tasks and Language Models (arXiv:2406.10391v2) · Table3,p.8,row(UTRBERT-6mer),column(ncRNA)

Source checking is not 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 2026-09-17-1a18ca2c038a
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(ncRNA)

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-ncrna

Source artifact SHA-256: 1370d75fe591bb8f994bc67f100a1a3fd557a62b9edb962b21f2fb038e9dea16

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

Inspected artifact

Sources and history

Release 2026-09-17-1a18ca2c038a · Record review: source checked

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

Stable ID: beacon-task-ncrna

areas
rna-transcriptomes
tasks
Non-coding RNA family classification
metric
ACC
metric direction
higher
task type
Multi-class Cls
rna level
Sequence
dataset
Noorul's ncRNA set
splits
5,679/650/2,400
source locator
Table1,p.6,row(ncRNA)
comparison panels
id: beacon-panel-ncrna; title: BEACON ncRNA: Non-coding RNA family classification; protocol id: beacon-task-ncrna; dataset id: beacon-dataset-noorul-s-ncrna-set; metric: accuracy; unit: percent; direction: higher; result ids: beacon-result-cnn-ncrna-accuracy; beacon-result-resnet-ncrna-accuracy; beacon-result-lstm-ncrna-accuracy; beacon-result-rna-fm-ncrna-accuracy; beacon-result-rnabert-ncrna-accuracy; beacon-result-rna-msm-ncrna-accuracy; beacon-result-splice-h510-ncrna-accuracy; beacon-result-splice-ms510-ncrna-accuracy; beacon-result-splice-ms1024-ncrna-accuracy; beacon-result-utr-lm-mrl-ncrna-accuracy; beacon-result-utr-lm-te-and-el-ncrna-accuracy; beacon-result-utrbert-3mer-ncrna-accuracy; beacon-result-utrbert-4mer-ncrna-accuracy; beacon-result-utrbert-5mer-ncrna-accuracy; beacon-result-utrbert-6mer-ncrna-accuracy; beacon-result-beacon-b-ncrna-accuracy; beacon-result-beacon-b512-ncrna-accuracy; source ids: source-beacon-arxiv-2406-10391; source locator: Table3,p.8,column(ncRNA); context: Every method in BEACON Table 3 on Non-coding RNA family classification, scored with ACC on Noorul's ncRNA set with the split 5,679/650/2,400.; 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
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