Task

mRNA half-life prediction

mRNA half-life prediction is evaluated with cross-validation on a compiled human annotation dataset.

Sources

mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51

1 evaluation · 1 result

Overview

Datasets

Human transcript half-life measurements compiled from multiple publications and samples.

Metrics

Spearman correlation, summarized across folds.

Allowed inputs

mRNA sequence representations.

Sources

mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51

Evaluation procedure diagram

How it worksComputational evaluation flow

Conceptual summary of the cited evaluation; exact task configuration and source version remain part of the protocol.

Sources

mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51

Source reviewed · Automated source review, 2026-09-16. All specifications and missing details

Results

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

All evaluations

1 evaluation · 1 result. Different protocols are not a single leaderboard.

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: mRNA-LM	Task: mRNA half-life prediction Dataset: mRNA half-life	0.696 Spearman rho unitless · unknown Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source mRNA-LM: mRNA half-life prediction average test performance across cross-validation splits Aggregation: Not reported mRNA-LM: full-length integrated SLM for mRNA analysis · Table 1, mRNA-LM row, mRNA half-life Spearman column

Source checking is not independent reproduction. Release 2026-09-29-06401fd5b220.

Methods and evaluation design

Procedure, tasks and evaluated configurations

How it works

Evaluation methodology

Human transcript half-life measurements compiled from multiple publications and samples. Ten-fold cross-validation for half-life, distinct from the five-fold settings used for other paper tasks. Spearman correlation, summarized across folds. RNA-FM and Saluki; the cited Saluki comparison is a literature-reported ablation without a splice-site feature. The half-life experiment inherits the original Saluki dataset’s predefined ten-fold split. The supplement does not specify an additional homology filter or a pretraining-versus-test sequence audit for mRNA-LM. Its random five-fold rule applies to the other datasets, not half-life.

Sources (2)

mRNA-LM: full-length integrated SLM for mRNA analysis; mrna-lm-2025__gkaf044_Supplemental_File.pdf · Methods: Datasets; Results: comparison; cached text lines 38–40, 51; Supplement: Section 1 Sequence extraction and data processing

Recorded evaluations

Each evaluation records what was tested and under which conditions.

mRNA-LM: mRNA half-life prediction

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

Strengths and limitations

Strengths supported by sources

No source-reviewed explanatory claims are recorded here yet.

Limitations and conditions

The inherited ten-fold half-life split and the random folds of other tasks are different protocols. The quoted Saluki ablation omits splice-site features and is not the full Saluki configuration.
Sources (2)
mRNA-LM: full-length integrated SLM for mRNA analysis; mrna-lm-2025__gkaf044_Supplemental_File.pdf · Supplement: Section 1 Sequence extraction and data processing

Profile review details

Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change.

Stable record: reported-task-5693847493f19f

Specifications

Inputs, training, access and other details

Explanatory profile: source reviewed · Automated source review, 2026-09-16. Review applies to the cited claims; unresolved fields are listed below. Numerical results retain their own review status.

Data, procedure and scoring
Property	Description and evidence
Datasets	Human transcript half-life measurements compiled from multiple publications and samples. Sources mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51
Splits	Ten-fold cross-validation for half-life, distinct from the five-fold settings used for other paper tasks. Sources mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51
Metrics	Spearman correlation, summarized across folds. Sources mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51
Baselines	RNA-FM and Saluki; the cited Saluki comparison is a literature-reported ablation without a splice-site feature. Sources mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51
Leakage controls	The half-life experiment inherits the original Saluki dataset’s predefined ten-fold split. The supplement does not specify an additional homology filter or a pretraining-versus-test sequence audit for mRNA-LM. Its random five-fold rule applies to the other datasets, not half-life. Sources (2) mRNA-LM: full-length integrated SLM for mRNA analysis; mrna-lm-2025__gkaf044_Supplemental_File.pdf · Supplement: Section 1 Sequence extraction and data processing
Uncertainty	Fold-wise distributions are shown in supplementary box plots. Sources mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51
Entity type	Paper-specific computational evaluation protocol. Sources mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51
Organisms	Human. Sources mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51
Assays	Published transcript half-life measurements. Sources mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51
Allowed inputs	mRNA sequence representations. Sources mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51
Adaptation	Supervised half-life prediction with ten-fold cross-validation. Sources mRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51

Evidence

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

Papers and result coverage

Last literature check: 2026-09-17. Dated primary-source discovery and protocol/table screening. Source checking does not mean experimental reproduction. Only separately extracted and independently reviewed numeric batches are publishable.

Paper or primary resource	Version	Reference
mRNA-LM: full-length integrated SLM for mRNA analysis	journal full text in PMC	Read source

Historical gaps recorded on 2026-09-17

The catalogue now holds 1 result rows for this benchmark. A note below about pending extraction describes the state on 2026-09-17 and may since have been answered by a later batch. The result rows and their sources are the current record.

complete numerical transcription and independent cell review: Full primary artifact and table inventory preserved; no new numeric row is published from this audit alone.
exact checkpoint hashes and per-method scored denominators: Table labels alone do not establish these fields; do not infer checkpoint or scored count from model name or dataset size.

Search and extraction details

primary comparison tables located

Searches

mRNA-LM: full-length integrated SLM for mRNA analysis 10.1093/nar/gkaf044

Evidence locations

Table 1.; XML table tbl1

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.

20 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-09-29-06401fd5b220
Property and statement	Original source and location	Review and provenance
Diagram caption Conceptual summary of the cited evaluation; exact task configuration and source version remain part of the protocol. Individual claims	mRNA-LM: full-length integrated SLM for mRNA analysis Original source ↗ Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558214+00:00	source checked automated source review · 2026-09-16 Audit details Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change. Field: `attributes.profile.diagram.caption` Source artifact SHA-256: `3a23de3c672ec162d13561c483f180a73b550d717256deffdc9099accec205fd` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Diagram steps Input: mRNA sequence representations. Evaluation: Ten-fold cross-validation for half-life, distinct from the five-fold settings used for other paper tasks. Readout: Spearman correlation, summarized across folds. Individual claims	mRNA-LM: full-length integrated SLM for mRNA analysis Original source ↗ Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558214+00:00	source checked automated source review · 2026-09-16 Audit details Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change. Field: `attributes.profile.diagram.steps` Source artifact SHA-256: `3a23de3c672ec162d13561c483f180a73b550d717256deffdc9099accec205fd` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Diagram title Computational evaluation flow Individual claims	mRNA-LM: full-length integrated SLM for mRNA analysis Original source ↗ Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558214+00:00	source checked automated source review · 2026-09-16 Audit details Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change. Field: `attributes.profile.diagram.title` Source artifact SHA-256: `3a23de3c672ec162d13561c483f180a73b550d717256deffdc9099accec205fd` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Datasets Human transcript half-life measurements compiled from multiple publications and samples. Individual claims	mRNA-LM: full-length integrated SLM for mRNA analysis Original source ↗ Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558214+00:00	source checked automated source review · 2026-09-16 Audit details Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change. Field: `attributes.profile.facts.0.value` Source artifact SHA-256: `3a23de3c672ec162d13561c483f180a73b550d717256deffdc9099accec205fd` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Splits Ten-fold cross-validation for half-life, distinct from the five-fold settings used for other paper tasks. Individual claims	mRNA-LM: full-length integrated SLM for mRNA analysis Original source ↗ Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558214+00:00	source checked automated source review · 2026-09-16 Audit details Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change. Field: `attributes.profile.facts.1.value` Source artifact SHA-256: `3a23de3c672ec162d13561c483f180a73b550d717256deffdc9099accec205fd` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Adaptation Supervised half-life prediction with ten-fold cross-validation. Individual claims	mRNA-LM: full-length integrated SLM for mRNA analysis Original source ↗ Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558214+00:00	source checked automated source review · 2026-09-16 Audit details Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change. Field: `attributes.profile.facts.10.value` Source artifact SHA-256: `3a23de3c672ec162d13561c483f180a73b550d717256deffdc9099accec205fd` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Metrics Spearman correlation, summarized across folds. Individual claims	mRNA-LM: full-length integrated SLM for mRNA analysis Original source ↗ Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558214+00:00	source checked automated source review · 2026-09-16 Audit details Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change. Field: `attributes.profile.facts.2.value` Source artifact SHA-256: `3a23de3c672ec162d13561c483f180a73b550d717256deffdc9099accec205fd` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Baselines RNA-FM and Saluki; the cited Saluki comparison is a literature-reported ablation without a splice-site feature. Individual claims	mRNA-LM: full-length integrated SLM for mRNA analysis Original source ↗ Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558214+00:00	source checked automated source review · 2026-09-16 Audit details Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change. Field: `attributes.profile.facts.3.value` Source artifact SHA-256: `3a23de3c672ec162d13561c483f180a73b550d717256deffdc9099accec205fd` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Leakage controls The half-life experiment inherits the original Saluki dataset’s predefined ten-fold split. The supplement does not specify an additional homology filter or a pretraining-versus-test sequence audit for mRNA-LM. Its random five-fold rule applies to the other datasets, not half-life. Individual claims	mrna-lm-2025__gkaf044_Supplemental_File.pdf Original source ↗ Supplement: Section 1 Sequence extraction and data processing Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved 2026-09-16; sha256:bf1e156bb09c90a9e18101a45332e5a7a8f3b7fd363f6ffbb7760020b4c8f40f Retrieved: 2026-09-16T21:08:59.937487+00:00	source checked automated source review · 2026-09-16 Audit details Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change. Field: `attributes.profile.facts.4.value` Source artifact SHA-256: `bf1e156bb09c90a9e18101a45332e5a7a8f3b7fd363f6ffbb7760020b4c8f40f` Hash scope: Hash scope not separately documented; inspect source record Archive member: gkaf044_Supplemental_File.pdf Inspected artifact
Leakage controls The half-life experiment inherits the original Saluki dataset’s predefined ten-fold split. The supplement does not specify an additional homology filter or a pretraining-versus-test sequence audit for mRNA-LM. Its random five-fold rule applies to the other datasets, not half-life. Individual claims	mRNA-LM: full-length integrated SLM for mRNA analysis Original source ↗ Supplement: Section 1 Sequence extraction and data processing Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558214+00:00	source checked automated source review · 2026-09-16 Audit details Targeted full-paper and supplement review of the outstanding task fields, with original dataset metadata checked where accessible. Source-scoped omissions are explicit; no independent benchmark reproduction or numerical-result change. Field: `attributes.profile.facts.4.value` Source artifact SHA-256: `3a23de3c672ec162d13561c483f180a73b550d717256deffdc9099accec205fd` 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: needs review

3 source records and release history

mRNA-LM: full-length integrated SLM for mRNA analysis · Original source · journal full text in PMC
mRNA-LM: full-length integrated SLM for mRNA analysis · Original source · journal full text in PMC
mrna-lm-2025__gkaf044_Supplemental_File.pdf · Original source · Retrieved 2026-09-16; sha256:bf1e156bb09c90a9e18101a45332e5a7a8f3b7fd363f6ffbb7760020b4c8f40f

Download this release

Technical metadata and extraction receipts

Stable ID: reported-task-5693847493f19f

areas: rna-transcriptomes
tasks: mRNA half-life prediction
entity level: task
version: Not reported
task: mRNA half-life prediction
scope note: Paper-specific evaluation task; protocol completeness requires further extraction.
benchmark research: review date: 2026-09-17; status: primary_comparison_tables_located; primary sources: evidence-expansion-mrna-lm-2025-3a23de3c; inspected locators: Table 1.; XML table tbl1; searched queries: mRNA-LM: full-length integrated SLM for mRNA analysis 10.1093/nar/gkaf044; gaps: complete numerical transcription and independent cell review: Full primary artifact and table inventory preserved; no new numeric row is published from this audit alone.; exact checkpoint hashes and per-method scored denominators: Table labels alone do not establish these fields; do not infer checkpoint or scored count from model name or dataset size.; claim scope: Dated primary-source discovery and protocol/table screening. Source checking does not mean experimental reproduction. Only separately extracted and independently reviewed numeric batches are publishable.
historical missing metadata: protocol version: not_reported_in_legacy_extract
metadata review scope: historical_missing_metadata preserves the original discovery state. Current descriptive evidence and missingness are recorded in profile.facts; numerical-result review is separate.
legacy kinds: benchmark
entity classification: review date: 2026-09-17; rationale: This source-scoped record identifies the biological prediction task and holds its paper context. Preserve the existing task identity; exact split, model adaptation and scoring remain in linked evaluations or separate protocol records.; source ids: mrna-lm-2025; source locator: Methods: Datasets; Results: comparison; cached text lines 38–40, 51; ambiguities: A paper- or suite-specific task may constrain some inputs or metrics; that alone does not make it interchangeable with a complete versioned protocol. No protocol equivalence is inferred.; Some legacy profile Entity type facts use the generic phrase computational evaluation protocol. That boilerplate is not sufficient to establish a single fixed protocol identity or to merge this task with another protocol record.

Related records

dataset: mRNA half-life
benchmark: mRNA-LM: mRNA half-life prediction

Suggest a correction