FramePool study MRL: Random 50nt
Pearson correlation of predicted and observed MRL on source held-out MPRA sequences.
Overview
Pearson correlation of predicted and observed MRL on source held-out MPRA sequences.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
10 recorded evaluations, 10 metric rows. A comparison chart has not yet been validated for these results. The table retains the individual findings and their sources.
Results
Results are available, but no reviewed comparison panel is linked in this release.
All evaluations
10 evaluations · 10 results. Different protocols are not a single leaderboard.
Filter evaluations
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: 3mer_random_forest | Protocol: FramePool study MRL: Random 50nt Dataset subset: Sample MPRA Random 50nt | 0.732 pearson_r correlation · higher Uncertainty: type: unreported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and source3mer_random_forest random-50nt Not reported Aggregation: Not reported FramePool 2021 primary article; FramePool Supplementary Table S4 · S4 Table cell B2; row 3mer_random_forest; S7–S8 MPRA correlation plots |
| Configuration: 4mer_random_forest | Protocol: FramePool study MRL: Random 50nt Dataset subset: Sample MPRA Random 50nt | 0.75 pearson_r correlation · higher Uncertainty: type: unreported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and source4mer_random_forest random-50nt Not reported Aggregation: Not reported FramePool 2021 primary article; FramePool Supplementary Table S4 · S4 Table cell B3; row 4mer_random_forest; S7–S8 MPRA correlation plots |
| Configuration: 5mer_frame_forest | Protocol: FramePool study MRL: Random 50nt Dataset subset: Sample MPRA Random 50nt | 0.803 pearson_r correlation · higher Uncertainty: type: unreported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNot reported Aggregation: Not reported FramePool 2021 primary article; FramePool Supplementary Table S4 · S4 Table cell B6; row 5mer_frame_forest; S7–S8 MPRA correlation plots |
| Configuration: frame_forest (4mer) | Protocol: FramePool study MRL: Random 50nt Dataset subset: Sample MPRA Random 50nt | 0.877 pearson_r correlation · higher Uncertainty: type: unreported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceframe_forest (4mer) random-50nt Not reported Aggregation: Not reported FramePool 2021 primary article; FramePool Supplementary Table S4 · S4 Table cell B4; row frame_forest (4mer); S7–S8 MPRA correlation plots |
| Configuration: frame_forest_hyperopt | Protocol: FramePool study MRL: Random 50nt Dataset subset: Sample MPRA Random 50nt | 0.876 pearson_r correlation · higher Uncertainty: type: unreported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceframe_forest_hyperopt random-50nt Not reported Aggregation: Not reported FramePool 2021 primary article; FramePool Supplementary Table S4 · S4 Table cell B5; row frame_forest_hyperopt; S7–S8 MPRA correlation plots |
| Configuration: FramePool 100 | Protocol: FramePool study MRL: Random 50nt Dataset subset: Sample MPRA Random 50nt | 0.929 pearson_r correlation · higher Uncertainty: type: unreported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNot reported Aggregation: Not reported FramePool 2021 primary article; FramePool Supplementary Table S1 · S1 Table cell E2; row Random 50nt, column FramePool 100; main text Evaluating frame pooling on MPRA data identifies Pearson correlation |
| Configuration: FramePool 50 | Protocol: FramePool study MRL: Random 50nt Dataset subset: Sample MPRA Random 50nt | 0.964 pearson_r correlation · higher Uncertainty: type: unreported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNot reported Aggregation: Not reported FramePool 2021 primary article; FramePool Supplementary Table S1 · S1 Table cell C2; row Random 50nt, column FramePool 50; main text Evaluating frame pooling on MPRA data identifies Pearson correlation |
| Configuration: FramePool Combined | Protocol: FramePool study MRL: Random 50nt Dataset subset: Sample MPRA Random 50nt | 0.954 pearson_r correlation · higher Uncertainty: type: unreported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceFramePool Combined Random 50nt Not reported Aggregation: Not reported FramePool 2021 primary article; FramePool Supplementary Table S1 · S1 Table cell F2; row Random 50nt, column FramePool Combined; main text Evaluating frame pooling on MPRA data identifies Pearson correlation |
| Configuration: Optimus 100 | Protocol: FramePool study MRL: Random 50nt Dataset subset: Sample MPRA Random 50nt | 0.938 pearson_r correlation · higher Uncertainty: type: unreported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNot reported Aggregation: Not reported FramePool 2021 primary article; FramePool Supplementary Table S1 · S1 Table cell D2; row Random 50nt, column Optimus 100; main text Evaluating frame pooling on MPRA data identifies Pearson correlation |
| Configuration: Optimus 50 | Protocol: FramePool study MRL: Random 50nt Dataset subset: Sample MPRA Random 50nt | 0.966 pearson_r correlation · higher Uncertainty: type: unreported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNot reported Aggregation: Not reported FramePool 2021 primary article; FramePool Supplementary Table S1 · S1 Table cell B2; row Random 50nt, column Optimus 50; main text Evaluating frame pooling on MPRA data identifies Pearson correlation |
Source checking is not independent reproduction. Release 2026-09-30-e37e3ab1284d.
Methods and evaluation design
Procedure, tasks and evaluated configurations
Evaluation design
Benchmarks bring together tasks and protocols. A task describes the biological question; a protocol defines a particular test.
Benchmarks
These source-backed links do not make different protocols or scores interchangeable.
Recorded evaluations
Each evaluation records what was tested and under which conditions.
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.
- Author-reported evaluations
- 10
Literature evidence is not a Rewire measurement. Executed but unpublished runs and private review status are not included.
Null control
Proposed control: requires review
Training-set mean where supervised fitting is permitted
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
Simple features with train-only ridge regression
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 · Model evaluation matrix · Source table · Release and checksums
Coverage is derived from release 2026-09-30-e37e3ab1284d. 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
Applicable tests and references
Applicability is distinct from a completed evaluation.
- 3mer_random_forest MRL comparator · source_supported
- 4mer_random_forest MRL comparator · source_supported
- 5mer_frame_forest MRL comparator · source_supported
- frame_forest (4mer) MRL comparator · source_supported
- frame_forest_hyperopt MRL comparator · source_supported
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.
2 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Relationship: part of uc20260930-benchmark-framepool Individual claims | FramePool 2021 primary article Supplementary Tables S1 and S4; Model training and testing Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 2021 journal article XML; PMC8136849.1 | source checked automated source review · 2026-09-30T21:44:09.612264+00:00 Audit detailsField: Claim: uc20260930-protocol-parent-b6a5b397be2cfc66 Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Relationship: part of uc20260930-benchmark-framepool Individual claims | FramePool Supplementary Table S1 Supplementary Tables S1 and S4; Model training and testing Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 2021 published S1 XLSX | source checked automated source review · 2026-09-30T21:44:09.612264+00:00 Audit detailsField: Claim: uc20260930-protocol-parent-b6a5b397be2cfc66 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 2026-09-30-e37e3ab1284d · Record review: source checked
2 source records and release history
- FramePool 2021 primary article · Original source · 2021 journal article XML; PMC8136849.1
- FramePool Supplementary Table S1 · Original source · 2021 published S1 XLSX
Technical metadata and extraction receipts
Stable ID: uc20260930-framepool-protocol-random-50nt
- areas
- rna-transcriptomes
- source locator
- S1 Table; Model training; Model testing
- review
- method: automated_source_review; reviewer: Codex experimental-use-case curation; date: 2026-09-30; reviewed at: 2026-09-30T21:40:59.576893+00:00; scope: Primary-source transcription and catalogue applicability audit; not human scientific review or independent experimental reproduction.
- limitations
- Distinct from mRNABench designed-MRL split; no merging of scores.; Optimus models truncate sequences to maximum trained length.
Related records
- part of: FramePool translation-prediction study
- applicable to: 3mer_random_forest MRL comparator
- applicable to: 4mer_random_forest MRL comparator
- applicable to: 5mer_frame_forest MRL comparator
- applicable to: frame_forest (4mer) MRL comparator
- applicable to: frame_forest_hyperopt MRL comparator
- protocol: 3mer_random_forest random-50nt
- protocol: 4mer_random_forest random-50nt
- protocol: 5mer_frame_forest random-50nt
- protocol: frame_forest (4mer) random-50nt
- protocol: frame_forest_hyperopt random-50nt
- protocol: FramePool 100 Random 50nt
- protocol: FramePool 50 Random 50nt
- protocol: FramePool Combined Random 50nt
- protocol: Optimus 100 Random 50nt
- protocol: Optimus 50 Random 50nt
- subject: FramePool study MRL: Random 50nt study membership