Naive Mamba | method

Overview

Baseline trained from scratch by the mRNABench authors.

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

Evaluations and results

10 evaluations · 10 results. Different protocols are not a single leaderboard.

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Method: Naive Mamba	Task: mRNABench ECLIP: eCLIP binding site prediction Dataset subset: mRNABench eCLIP (mRNABench split)	26.5% auprc percent · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Naive Mamba on mRNABench ECLIP: eCLIP binding site prediction A linear probe over frozen embeddings, scored as the mean over ten random seeds. Aggregation: Not reported mRNABench: A curated benchmark for mature mRNA property and function prediction · Table 2, row(Naive Mamba), column(eCLIP)
Method: Naive Mamba	Task: mRNABench GO: Gene Ontology term prediction Dataset subset: mRNABench GO (mRNABench split)	26.6% auprc percent · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Naive Mamba on mRNABench GO: Gene Ontology term prediction A linear probe over frozen embeddings, scored as the mean over ten random seeds. Aggregation: Not reported mRNABench: A curated benchmark for mature mRNA property and function prediction · Table 2, row(Naive Mamba), column(GO)
Method: Naive Mamba	Task: mRNABench HL: mRNA half life Dataset subset: mRNABench HL (mRNABench split)	0.57 pearson_r correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Naive Mamba on mRNABench HL: mRNA half life A linear probe over frozen embeddings, scored as the mean over ten random seeds. Aggregation: Not reported mRNABench: A curated benchmark for mature mRNA property and function prediction · Table 2, row(Naive Mamba), column(HL)
Method: Naive Mamba	Task: mRNABench MRL-HL-PAIR: Paired mean ribosome load and half life Dataset subset: mRNABench MRL-HL-Pair (mRNABench split)	0.44 pearson_r correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Naive Mamba on mRNABench MRL-HL-PAIR: Paired mean ribosome load and half life A linear probe over frozen embeddings, scored as the mean over ten random seeds. Aggregation: Not reported mRNABench: A curated benchmark for mature mRNA property and function prediction · Table 2, row(Naive Mamba), column(MRL-HL-Pair)
Method: Naive Mamba	Task: mRNABench MRL-MPRA: Mean ribosome load on an MPRA library Dataset subset: mRNABench MRL MPRA (mRNABench split)	0.5 pearson_r correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Naive Mamba on mRNABench MRL-MPRA: Mean ribosome load on an MPRA library A linear probe over frozen embeddings, scored as the mean over ten random seeds. Aggregation: Not reported mRNABench: A curated benchmark for mature mRNA property and function prediction · Table 2, row(Naive Mamba), column(MRL MPRA)
Method: Naive Mamba	Task: mRNABench MRL: Mean ribosome load Dataset subset: mRNABench MRL (mRNABench split)	0.19 pearson_r correlation · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Naive Mamba on mRNABench MRL: Mean ribosome load A linear probe over frozen embeddings, scored as the mean over ten random seeds. Aggregation: Not reported mRNABench: A curated benchmark for mature mRNA property and function prediction · Table 2, row(Naive Mamba), column(MRL)
Method: Naive Mamba	Task: mRNABench MRNA-LOC-LR: mRNA localisation, long range Dataset subset: mRNABench mRNA Loc-LR (mRNABench split)	70.4% auprc percent · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Naive Mamba on mRNABench MRNA-LOC-LR: mRNA localisation, long range A linear probe over frozen embeddings, scored as the mean over ten random seeds. Aggregation: Not reported mRNABench: A curated benchmark for mature mRNA property and function prediction · Table 2, row(Naive Mamba), column(mRNA Loc-LR)
Method: Naive Mamba	Task: mRNABench MRNA-LOC-SR: mRNA localisation, short range Dataset subset: mRNABench mRNA Loc-SR (mRNABench split)	63.1% auprc percent · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Naive Mamba on mRNABench MRNA-LOC-SR: mRNA localisation, short range A linear probe over frozen embeddings, scored as the mean over ten random seeds. Aggregation: Not reported mRNABench: A curated benchmark for mature mRNA property and function prediction · Table 2, row(Naive Mamba), column(mRNA Loc-SR)
Method: Naive Mamba	Task: mRNABench PROT-LOC: Protein localisation Dataset subset: mRNABench Prot Loc (mRNABench split)	29.4% auprc percent · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Naive Mamba on mRNABench PROT-LOC: Protein localisation A linear probe over frozen embeddings, scored as the mean over ten random seeds. Aggregation: Not reported mRNABench: A curated benchmark for mature mRNA property and function prediction · Table 2, row(Naive Mamba), column(Prot Loc)
Method: Naive Mamba	Task: mRNABench VEP: Variant effect prediction Dataset subset: mRNABench VEP (mRNABench split)	10.2% auprc percent · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Naive Mamba on mRNABench VEP: Variant effect prediction A linear probe over frozen embeddings, scored as the mean over ten random seeds. Aggregation: Not reported mRNABench: A curated benchmark for mature mRNA property and function prediction · Table 2, row(Naive Mamba), column(VEP)

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Sources and history

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

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mRNABench: A curated benchmark for mature mRNA property and function prediction · Original source · preprint archived 2025-07-08

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Technical metadata and extraction receipts

Stable ID: mrnabench-method-naive-mamba

areas: rna-transcriptomes
source locator: Table 2, row(Naive Mamba)
missing metadata: checkpoint revision: unreported; parameters: unextracted

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