Protocol

Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays)

Zero-shot: pseudo-log-likelihood difference from token logits; SR reported as mean over assays (Supplementary Table 11).

35 evaluations · 35 results

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.

35 recorded evaluations, 35 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

35 evaluations · 35 results. Different protocols are not a single leaderboard.

Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) · Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)

Sorted by Absolute spearman correlation (PLL-D; mean over assays) (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	Absolute spearman correlation (PLL-D; mean over assays)
EVO1.5 (8k_base) (zero-shot, Wang et al. 2026)Evaluation	0.179±0.114 (best in column)
AIDO.RNA (1.6B) (zero-shot, Wang et al. 2026)Evaluation	0.175±0.135
AIDO.RNA (650M) (zero-shot, Wang et al. 2026)Evaluation	0.169±0.143
RiNALMo (mega) (zero-shot, Wang et al. 2026)Evaluation	0.168±0.149
RiNALMo (giga) (zero-shot, Wang et al. 2026)Evaluation	0.167±0.151
Uni-RNA (L12) (zero-shot, Wang et al. 2026)Evaluation	0.151±0.139
Uni-RNA (L16) (zero-shot, Wang et al. 2026)Evaluation	0.145±0.142
DGRNA (zero-shot, Wang et al. 2026)Evaluation	0.142±0.108
RNA-FM (zero-shot, Wang et al. 2026)Evaluation	0.140±0.116
Uni-RNA (L8) (zero-shot, Wang et al. 2026)Evaluation	0.139±0.109
GenerRNA (zero-shot, Wang et al. 2026)Evaluation	0.130±0.123
LAMAR (4k) (zero-shot, Wang et al. 2026)Evaluation	0.126±0.105
RiNALMo (micro) (zero-shot, Wang et al. 2026)Evaluation	0.126±0.130
RFamLlama (Base) (zero-shot, Wang et al. 2026)Evaluation	0.123±0.096
EVO1 (8k_base) (zero-shot, Wang et al. 2026)Evaluation	0.119±0.100
LucaOne (D17.6M) (zero-shot, Wang et al. 2026)Evaluation	0.118±0.105
RFamLlama (Large) (zero-shot, Wang et al. 2026)Evaluation	0.118±0.090
PlantRNA-FM (zero-shot, Wang et al. 2026)Evaluation	0.115±0.102
NT (zero-shot, Wang et al. 2026)Evaluation	0.111±0.109
LAMAR (2k) (zero-shot, Wang et al. 2026)Evaluation	0.108±0.082
UTR_LM (zero-shot, Wang et al. 2026)Evaluation	0.103±0.097
3UTRBERT (K4) (zero-shot, Wang et al. 2026)Evaluation	0.100±0.077
LucaOne (G36.8M) (zero-shot, Wang et al. 2026)Evaluation	0.100±0.079
RNAErnie (zero-shot, Wang et al. 2026)Evaluation	0.100±0.092
MP-RNA (zero-shot, Wang et al. 2026)Evaluation	0.098±0.084
SpliceBERT (zero-shot, Wang et al. 2026)Evaluation	0.097±0.088
RNABERT (zero-shot, Wang et al. 2026)Evaluation	0.090±0.086
DNABERT-2 (zero-shot, Wang et al. 2026)Evaluation	0.085±0.056
3UTRBERT (K5) (zero-shot, Wang et al. 2026)Evaluation	0.082±0.066
3UTRBERT (K6) (zero-shot, Wang et al. 2026)Evaluation	0.082±0.065
ProtRNA (zero-shot, Wang et al. 2026)Evaluation	0.082±0.052
LucaOne (D36.0M) (zero-shot, Wang et al. 2026)Evaluation	0.081±0.068
DNABERT (k=6) (zero-shot, Wang et al. 2026)Evaluation	0.077±0.061
DNABERT (k=3) (zero-shot, Wang et al. 2026)Evaluation	0.073±0.051
3UTRBERT (K3) (zero-shot, Wang et al. 2026)Evaluation	0.066±0.065

All 35 result rows with coverage, uncertainty and sources

Filter evaluations

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: 3UTRBERT (K3) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.066±0.065 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.065 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source 3UTRBERT (K3) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row '3UTRBERT (K3)', column 'SR' (Mean ± Std)
Configuration: 3UTRBERT (K4) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.100±0.077 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.077 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source 3UTRBERT (K4) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row '3UTRBERT (K4)', column 'SR' (Mean ± Std)
Configuration: 3UTRBERT (K5) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.082±0.066 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.066 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source 3UTRBERT (K5) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row '3UTRBERT (K5)', column 'SR' (Mean ± Std)
Configuration: 3UTRBERT (K6) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.082±0.065 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.065 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source 3UTRBERT (K6) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row '3UTRBERT (K6)', column 'SR' (Mean ± Std)
Configuration: AIDO.RNA (1.6B) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.175±0.135 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.135 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source AIDO.RNA (1.6B) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'AIDO.RNA (1.6B)', column 'SR' (Mean ± Std)
Configuration: AIDO.RNA (650M) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.169±0.143 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.143 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source AIDO.RNA (650M) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'AIDO.RNA (650M)', column 'SR' (Mean ± Std)
Configuration: DGRNA (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.142±0.108 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.108 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DGRNA zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'DGRNA', column 'SR' (Mean ± Std)
Configuration: DNABERT-2 (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.085±0.056 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.056 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT-2 zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'DNABERT-2', column 'SR' (Mean ± Std)
Configuration: DNABERT (k=3) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.073±0.051 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.051 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT (k=3) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'DNABERT (k=3)', column 'SR' (Mean ± Std)
Configuration: DNABERT (k=6) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.077±0.061 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.061 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source DNABERT (k=6) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'DNABERT (k=6)', column 'SR' (Mean ± Std)
Configuration: EVO1.5 (8k_base) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.179±0.114 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.114 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source EVO1.5 (8k_base) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'EVO1.5 (8k_base)', column 'SR' (Mean ± Std)
Configuration: EVO1 (8k_base) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.119±0.100 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.100 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source EVO1 (8k_base) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'EVO1 (8k_base)', column 'SR' (Mean ± Std)
Configuration: GenerRNA (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.130±0.123 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.123 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source GenerRNA zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'GenerRNA', column 'SR' (Mean ± Std)
Configuration: LAMAR (2k) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.108±0.082 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.082 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source LAMAR (2k) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'LAMAR (2k)', column 'SR' (Mean ± Std)
Configuration: LAMAR (4k) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.126±0.105 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.105 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source LAMAR (4k) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'LAMAR (4k)', column 'SR' (Mean ± Std)
Configuration: LucaOne (D17.6M) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.118±0.105 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.105 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source LucaOne (D17.6M) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'LucaOne (D17.6M)', column 'SR' (Mean ± Std)
Configuration: LucaOne (D36.0M) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.081±0.068 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.068 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source LucaOne (D36.0M) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'LucaOne (D36.0M)', column 'SR' (Mean ± Std)
Configuration: LucaOne (G36.8M) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.100±0.079 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.079 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source LucaOne (G36.8M) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'LucaOne (G36.8M)', column 'SR' (Mean ± Std)
Configuration: MP-RNA (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.098±0.084 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.084 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source MP-RNA zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'MP-RNA', column 'SR' (Mean ± Std)
Configuration: NT (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.111±0.109 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.109 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source NT zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'NT', column 'SR' (Mean ± Std)
Configuration: PlantRNA-FM (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.115±0.102 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.102 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source PlantRNA-FM zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'PlantRNA-FM', column 'SR' (Mean ± Std)
Configuration: ProtRNA (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.082±0.052 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.052 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source ProtRNA zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'ProtRNA', column 'SR' (Mean ± Std)
Configuration: RFamLlama (Base) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.123±0.096 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.096 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source RFamLlama (Base) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'RFamLlama (Base)', column 'SR' (Mean ± Std)
Configuration: RFamLlama (Large) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.118±0.090 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.090 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source RFamLlama (Large) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'RFamLlama (Large)', column 'SR' (Mean ± Std)
Configuration: RiNALMo (giga) (zero-shot, Wang et al. 2026)	Protocol: Wang et al. 2026 zero-shot fitness, RNAGym ncRNA DMS assays (31 assays), PLL-D, SR (mean over assays) Dataset: RNAGym ncRNA DMS assays (31 assays) (Wang et al. 2026)	0.167±0.151 Absolute spearman correlation (PLL-D; mean over assays) unitless · higher Uncertainty: SD 0.151 Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source RiNALMo (giga) zero-shot fitness on RNAGym ncRNA DMS assays (31 assays) (PLL-D, SR, mean) lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean Aggregation: Not reported Zero-shot benchmarking of RNA language models: Supplementary Information; Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Supplementary Table 11, row 'RiNALMo (giga)', column 'SR' (Mean ± Std)

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.

Explore all linked results

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: 35

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

Null control

Proposed control: requires review

Protocol-valid seeded random ranking; no fitting on assay labels

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

Established label-free reference with explicitly permitted sequence/MSA inputs

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

No runnable recipe has been reviewed for this protocol. Dataset access, model requirements, licences and compute requirements must be checked against its sources before execution.

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.

0 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-22-1b7cf027e4f6
Property and statement	Original source and location	Review and provenance

No evidence rows match these filters. Choose another scope or clear the search.

How to read the evidence

Sources and history

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

2 source records and release history

Zero-shot benchmarking of RNA language models: Supplementary Information · Original source · bbag098_supplymentary_information_20260209.docx from the Europe PMC supplementary files archive for PMC12963973
Zero-shot benchmarking of RNA language models in structural, functional, and evolutionary learning · Original source · Briefings in Bioinformatics 2026, bbag098 (issue date 2026-03-01); PMC12963973 full-text XML

Download this release (gzip)

Technical metadata and extraction receipts

Stable ID: lit-rna-20261011-rnalm-zeroshot-protocol-t11-sr-mean

areas: rna-transcriptomes
contexts: research
protocol: Zero-shot: pseudo-log-likelihood difference from token logits. Metric SR, mean over assays.
version: Wang et al. 2026
metric: absolute-spearman-correlation
metric direction: higher
unit: unitless
metric qualifier: PLL-D; mean over assays
source locator: Supplementary Table 11 caption and column 'SR'; main text Methods
limitations: Zero-shot only; no fine-tuning or task head.; Binarisation for MCC, F1 and AUC in the fitness task is not described in the main text or supplement.

Related records

Suggest a correction