Strengths supported by sources
No source-reviewed explanatory claims are recorded here yet.
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, 51At a glance
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.
| Property | Description and evidence |
|---|---|
| Datasets | Human transcript half-life measurements compiled from multiple publications and samples.SourcesmRNA-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.SourcesmRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51 |
| Metrics | Spearman correlation, summarized across folds.SourcesmRNA-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.SourcesmRNA-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.SourcesmRNA-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.SourcesmRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51 |
| Organisms | Human.SourcesmRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51 |
| Assays | Published transcript half-life measurements.SourcesmRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51 |
| Allowed inputs | mRNA sequence representations.SourcesmRNA-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.SourcesmRNA-LM: full-length integrated SLM for mRNA analysis · Methods: Datasets; Results: comparison; cached text lines 38–40, 51 |
How it works
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, 51Evaluation 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 processingRecorded evaluations
Each evaluation records what was tested and under which conditions.
Tested entities and results
Release 2026-09-17-d277315f7d76 · 1 evaluation · 1 metric row. Different protocols are not a single leaderboard.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| mRNA-LM: mRNA half-life prediction average test performance across cross-validation splits Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.696 Spearman rho Unit: unitless · Direction: unknown | Uncertainty: not reported in legacy extract Scored: Not reported · Eligible: Not reported | source checkedmRNA-LM: full-length integrated SLM for mRNA analysis · Table 1, mRNA-LM row, mRNA half-life Spearman column Source checking is not 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 |
What is still missing
- 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
Strengths and limitations
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-5693847493f19fEvidence 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
| 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 Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsTargeted 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| 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 Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsTargeted 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram title Computational evaluation flow Individual claims | mRNA-LM: full-length integrated SLM for mRNA analysis Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsTargeted 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Datasets Human transcript half-life measurements compiled from multiple publications and samples. Individual claims | mRNA-LM: full-length integrated SLM for mRNA analysis Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsTargeted 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| 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 Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsTargeted 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Adaptation Supervised half-life prediction with ten-fold cross-validation. Individual claims | mRNA-LM: full-length integrated SLM for mRNA analysis Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsTargeted 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Metrics Spearman correlation, summarized across folds. Individual claims | mRNA-LM: full-length integrated SLM for mRNA analysis Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsTargeted 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| 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 Methods: Datasets; Results: comparison; cached text lines 38–40, 51 Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsTargeted 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| 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 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 | source checked automated source review · 2026-09-16 Audit detailsTargeted 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Archive member: gkaf044_Supplemental_File.pdf |
| 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 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 | source checked automated source review · 2026-09-16 Audit detailsTargeted 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: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
Release 2026-09-17-d277315f7d76 · 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
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