Sequence composition + RidgeCV on mRNABench Sample designed MRL
Predict target_mrl_designed from sequence on the complete 15,003-record canonical test split. Train-only RidgeCV differs from upstream default validation evaluation; this is not an aggregate mRNABench score.
Evaluation results
1 evaluation · 3 metric rows. Different protocols are not a single leaderboard.
Filter evaluations
Applied filters: All linked evaluations
Source checking is not independent reproduction. Release 2026-09-22-f58a0f1d267f.
Evaluation procedure
mRNABench Sample designed MRL
- Configuration
- Sequence composition + RidgeCV (mRNABench Sample designed MRL)
- Protocol
- mRNABench Sample designed MRL
- Dataset subset
- mRNABench Sample designed MRL test subset
- origin
- Rewire evaluation
- configuration
- 1
- protocol id
- rewire-protocol-mrnabench-designed-mrl-v1
- dataset version
- rewire-dataset-mrnabench-designed-mrl-v1
- split
- canonical test
- subset
- mrnabench-sample-mrl-designed-target_mrl_designed
- population
- 15003/15003
- inputs
- Complete source sequence only; no assay labels during prediction
- adaptation
- train-only fitting
- metric implementation
- fcc5ab65e6753cf29aabbdae231cbb5cdf72a3dd40ba8f109802c33223b33536
- aggregation
- all held-out test rows of the selected target
- budget
- one local CPU evaluation; no hyperparameter search outside training
Metadata review: source checked. Unreported conditions prevent automatic comparisons.
Reproduction
- Split
- canonical test
- Adaptation
- train-only fitting
- Scoring implementation
- fcc5ab65e6753cf29aabbdae231cbb5cdf72a3dd40ba8f109802c33223b33536
Generate and evaluate predictions
This committed script regenerates the selected local evaluation with the recorded inputs and configuration. Sequence-control instructions execute all four controls; select this evaluation from their outputs. Raw prior predictions are private, so public evidence alone cannot rescore them.
mRNABench Sample designed MRL: reproduction instructions · Reproduce sectionReproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.
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.
138 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.comparison.adaptation train-only fitting Context-only references | mRNABench Sample designed MRL: reproduction instructions metrics; coverage; protocol_results Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ca73fa47136d182f2d4ddb083d084712198fc0e2 | not individually reviewed No individual claim review recorded rewire run Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.adaptation train-only fitting Context-only references | Sequence composition + RidgeCV: local execution report (20 September 2026) metrics; coverage; protocol_results Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ca73fa47136d182f2d4ddb083d084712198fc0e2 | not individually reviewed No individual claim review recorded rewire run Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.aggregation all held-out test rows of the selected target Context-only references | mRNABench Sample designed MRL: reproduction instructions metrics; coverage; protocol_results Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ca73fa47136d182f2d4ddb083d084712198fc0e2 | not individually reviewed No individual claim review recorded rewire run Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.aggregation all held-out test rows of the selected target Context-only references | Sequence composition + RidgeCV: local execution report (20 September 2026) metrics; coverage; protocol_results Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ca73fa47136d182f2d4ddb083d084712198fc0e2 | not individually reviewed No individual claim review recorded rewire run Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.budget one local CPU evaluation; no hyperparameter search outside training Context-only references | mRNABench Sample designed MRL: reproduction instructions metrics; coverage; protocol_results Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ca73fa47136d182f2d4ddb083d084712198fc0e2 | not individually reviewed No individual claim review recorded rewire run Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.budget one local CPU evaluation; no hyperparameter search outside training Context-only references | Sequence composition + RidgeCV: local execution report (20 September 2026) metrics; coverage; protocol_results Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ca73fa47136d182f2d4ddb083d084712198fc0e2 | not individually reviewed No individual claim review recorded rewire run Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.dataset_version rewire-dataset-mrnabench-designed-mrl-v1 Context-only references | mRNABench Sample designed MRL: reproduction instructions metrics; coverage; protocol_results Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ca73fa47136d182f2d4ddb083d084712198fc0e2 | not individually reviewed No individual claim review recorded rewire run Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.dataset_version rewire-dataset-mrnabench-designed-mrl-v1 Context-only references | Sequence composition + RidgeCV: local execution report (20 September 2026) metrics; coverage; protocol_results Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ca73fa47136d182f2d4ddb083d084712198fc0e2 | not individually reviewed No individual claim review recorded rewire run Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.inputs Complete source sequence only; no assay labels during prediction Context-only references | mRNABench Sample designed MRL: reproduction instructions metrics; coverage; protocol_results Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ca73fa47136d182f2d4ddb083d084712198fc0e2 | not individually reviewed No individual claim review recorded rewire run Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.inputs Complete source sequence only; no assay labels during prediction Context-only references | Sequence composition + RidgeCV: local execution report (20 September 2026) metrics; coverage; protocol_results Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: ca73fa47136d182f2d4ddb083d084712198fc0e2 | not individually reviewed No individual claim review recorded rewire run Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
View linked audit checks and correction history
Release 2026-09-22-f58a0f1d267f · Record review: source checked
2 source records and release history
- Sequence composition + RidgeCV: local execution report (20 September 2026) · Original source · ca73fa47136d182f2d4ddb083d084712198fc0e2
- mRNABench Sample designed MRL: reproduction instructions · Original source · ca73fa47136d182f2d4ddb083d084712198fc0e2
Technical metadata and extraction receipts
Stable ID: rewire-local-20260920-evaluation-mrnabench-composition
- areas
- rna-transcriptomics
- origin
- rewire_run
- execution scope
- complete_selected_evaluation
- published score reproduction
- false
- protocol
- mRNABench Sample designed MRL
- version
- 1
- source locator
- metrics; coverage; protocol_results
- original sdk scope
- full
- original sdk completion
- complete
- eligible count
- 15003
- scored count
- 15003
- missing count
- 0
- coverage
- 15003/15003
- suite complete
- false
- comparison
- protocol id: rewire-protocol-mrnabench-designed-mrl-v1; dataset version: rewire-dataset-mrnabench-designed-mrl-v1; split: canonical test; subset: mrnabench-sample-mrl-designed-target_mrl_designed; population: 15003/15003; inputs: Complete source sequence only; no assay labels during prediction; adaptation: train-only fitting; metric implementation: fcc5ab65e6753cf29aabbdae231cbb5cdf72a3dd40ba8f109802c33223b33536; aggregation: all held-out test rows of the selected target; budget: one local CPU evaluation; no hyperparameter search outside training
- input information
- Complete source sequence only; no assay labels during prediction
- model configuration
- alphas: 0.001; 0.01; 0.1; 1; 10; features: log1p length, A/C/G/T fractions, unknown fraction; normalization: none; selection: RidgeCV within training only; split seed: 2541; validation used: false
- provenance
- data verification: pinned_source_bytes; dataset revision: ef67f7cf8a999bb1c412ad6551aa7d9f901cbb95; source license: unreported; source sha256: 8b8c57581d472e89a21f8b468b3b0599f6c235c01423264561e6c302d78927d4; source url: https://huggingface.co/datasets/morrislab/mrl-sample/resolve/ef67f7cf8a999bb1c412ad6551aa7d9f901cbb95/mrl-sample-designed.parquet; split sha256: 00e287b18ba4e90cb682af6e3fcdfc97e07f2b4b25d13265cd0eca37996536a2; upstream code license: AGPL-3.0; upstream revision: 74f96b8e6ae9f41cc3cccff089d826a62d5604b8
- predictions sha256
- a8f80cfea7ddd197ef9446e161f5a761741b3f778dfc1459275c3355432e15c5
- prepared sha256
- f4f9777b5119b739437c6a9d85e4e1b937268dafd1307efca5f072d38957738b
- execution
- adapter: SequenceComposition; batch size: 32; fitting: protocol_owned_probe; inference and fit seconds: 0.9550586660043336; mode: local_adapter; prediction type: embedding
- timing seconds
- evaluation: 1.178694207999797
- environment
- architecture: arm64; container digest: unreported; container runtime: unreported; platform: macOS-26.6.2-arm64-arm-64bit; python: 3.11.13; rewirebench: 0.4.0; sdk code sha256: fcc5ab65e6753cf29aabbdae231cbb5cdf72a3dd40ba8f109802c33223b33536; sif sha256: unreported
- run url
- https://github.com/rewire-bio/rewire-benchmarks/blob/ca73fa47136d182f2d4ddb083d084712198fc0e2/research/local-runs-2026-09-20/mrnabench-composition/report.json
- reproduction url
- https://github.com/rewire-bio/rewire-benchmarks/blob/ca73fa47136d182f2d4ddb083d084712198fc0e2/research/local-runs-2026-09-20/README.md
- limitations
- One selected split or assay; no whole-suite score.; No published model score reproduction claim.; Raw predictions retained locally; hashes and inspected contribution bundle are public.; Single execution; no seed variability or uncertainty interval estimated.
- reproduction
- recipe owner id: rewire-protocol-mrnabench-designed-mrl-v1; recipe id: local-20260920-mrnabench-repeat; applicability: generate_and_evaluate; explanation: This committed script regenerates the selected local evaluation with the recorded inputs and configuration. Sequence-control instructions execute all four controls; select this evaluation from their outputs. Raw prior predictions are private, so public evidence alone cannot rescore them.; source ids: rewire-local-20260920-instructions-mrnabench; source locator: Reproduce section
Related records
- configuration: Sequence composition + RidgeCV (mRNABench Sample designed MRL)
- protocol: mRNABench Sample designed MRL
- dataset subset: mRNABench Sample designed MRL test subset
- evaluation: Sequence composition + RidgeCV: mse
- evaluation: Sequence composition + RidgeCV: pearson
- evaluation: Sequence composition + RidgeCV: spearman