FLIP2 Amylase by-mutation; held-out test set · Amylase
Source-specific evaluation. No equivalence to other releases, protocols or model families is inferred.
Overview
Source-specific evaluation. No equivalence to other releases, protocols or model families is inferred.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Results
Each comparison retains its reviewed evaluation scope, dataset and metric. Results are shown without a pooled ranking.
FLIP2 Amylase by-mutation; held-out test set · Amylase: spearman
spearman (correlation) · Higher values are better.
FLIP2 Amylase by-mutation; held-out test set · Amylase · Amylase
Evidence origin: Author-reported evaluation.
FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Table A4; row Ridge (one-hot); column spearman through Table A4; row ESMC-300M naive supervised; column spearman- Missing source cells and quarantined conflicts are recorded in acquisition and audit tables. Per-result scoring denominators may be unreported.
Comparison details and limitations
Complete selected source table is retained across source-order panels. These point estimates do not establish statistical significance or a universal ranking.
- Source-specific evaluation. No equivalence to other releases, protocols or model families is inferred.
- Exact source-defined evaluation scope; reported scores are not rewire reproductions.
Automated source review: 2026-09-19. Numerical source review does not establish independent reproduction.
Dots show point estimates. Whiskers show only explicitly defined uncertainty (standard deviation, standard error or a labelled interval); their definitions remain in Table. Unresolved uncertainty is not plotted. Differences do not establish statistical significance.
Showing 9 of 9 matching rows.
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.
- Ridge (one-hot) · FLIP2 Amylase by-mutation; held-out test set · Amylase
- Dayhoff likelihood · FLIP2 Amylase by-mutation; held-out test set · Amylase
- CARP-640M naive supervised · FLIP2 Amylase by-mutation; held-out test set · Amylase
- CARP-640M likelihood · FLIP2 Amylase by-mutation; held-out test set · Amylase
- ESMC-300M naive supervised · FLIP2 Amylase by-mutation; held-out test set · Amylase
- ESM2-650M likelihood · FLIP2 Amylase by-mutation; held-out test set · Amylase
- CARP-640M supervised · FLIP2 Amylase by-mutation; held-out test set · Amylase
- Ridge (one-hot + likelihoods) · FLIP2 Amylase by-mutation; held-out test set · Amylase
- ESMC-300M supervised · FLIP2 Amylase by-mutation; held-out test set · Amylase
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.
No reviewed evaluations with results linked in this release.
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 2026-09-29-06401fd5b220. 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
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.
1 evidence row matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Relationship: part of discovery-benchmark-flip2 Individual claims | FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications Table A4; row Ridge (one-hot); column spearman Version: Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256 | source checked ai assisted source review · 2026-09-19 Audit detailsField: Claim: acquired-membership-e49f4538cde6fbeb133c Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
Sources and history
View linked audit checks and correction history
Release 2026-09-29-06401fd5b220 · Record review: discovered
1 source records and release history
- FLIP2: Expanding Protein Fitness Landscape Benchmarks for Real-World Machine Learning Applications · Original source · Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Technical metadata and extraction receipts
Stable ID: acquired-protocol-5e6866875f05d71b27d6
- source locator
- Table A4; row Ridge (one-hot); column spearman
- procedure
- FLIP2 Amylase by-mutation; held-out test set
- comparison panels
- id: acquired-figure-7caa14784ce37c52f66b; title: FLIP2 Amylase by-mutation; held-out test set · Amylase: spearman; protocol id: acquired-protocol-5e6866875f05d71b27d6; dataset id: acquired-dataset-b0b4eca267c04e159e7c; metric: spearman; unit: correlation; direction: higher; result ids: acquired-result-f32dc8d93fab6539bef6; acquired-result-58fbadc72b90f1d896e0; acquired-result-399dde96ffb39ec9df0b; acquired-result-b0541a9e9ed1dbd1e176; acquired-result-2e10761c216162d6fe48; acquired-result-35b3512038b62b53533c; acquired-result-57ff7bc75b01e30e8125; acquired-result-2747221bec4b5cec8a60; acquired-result-da0b8e3e17f600c90cec; source ids: evidence-expansion-flip2-d0e61ca2; source locator: Table A4; row Ridge (one-hot); column spearman through Table A4; row ESMC-300M naive supervised; column spearman; context: Complete selected source table is retained across source-order panels. These point estimates do not establish statistical significance or a universal ranking.; caveats: Source-specific evaluation. No equivalence to other releases, protocols or model families is inferred.; Exact source-defined evaluation scope; reported scores are not rewire reproductions.; Missing source cells and quarantined conflicts are recorded in acquisition and audit tables. Per-result scoring denominators may be unreported.; review: method: automated_source_review; date: 2026-09-19; id: acquired-figure-8fcdd03e536bb785ba51; title: FLIP2 Amylase by-mutation; held-out test set · Amylase: ndcg; protocol id: acquired-protocol-5e6866875f05d71b27d6; dataset id: acquired-dataset-b0b4eca267c04e159e7c; metric: ndcg; unit: unitless; direction: higher; result ids: acquired-result-7d5e4909e4f829beb9d0; acquired-result-17f5793806061f3545d1; acquired-result-6610cf8b73d1b9e294ff; acquired-result-b2fe0181d2e230bd44c4; acquired-result-6d79d7350f930ceb0d1a; acquired-result-170b43f0fcc79bdc76e0; acquired-result-8cc9e427e4216e6e9e37; acquired-result-6f9e703db3d6da2aaf88; acquired-result-7962c9df963c94609c32; source ids: evidence-expansion-flip2-d0e61ca2; source locator: Table A4; row Ridge (one-hot); column ndcg through Table A4; row ESMC-300M naive supervised; column ndcg; context: Complete selected source table is retained across source-order panels. These point estimates do not establish statistical significance or a universal ranking.; caveats: Source-specific evaluation. No equivalence to other releases, protocols or model families is inferred.; Exact source-defined evaluation scope; reported scores are not rewire reproductions.; Missing source cells and quarantined conflicts are recorded in acquisition and audit tables. Per-result scoring denominators may be unreported.; review: method: automated_source_review; date: 2026-09-19
- scope limitations
- Exact source-defined evaluation scope; reported scores are not rewire reproductions.
Related records
- part of: FLIP2
- benchmark: Ridge (one-hot) · FLIP2 Amylase by-mutation; held-out test set · Amylase
- benchmark: Dayhoff likelihood · FLIP2 Amylase by-mutation; held-out test set · Amylase
- benchmark: CARP-640M naive supervised · FLIP2 Amylase by-mutation; held-out test set · Amylase
- benchmark: CARP-640M likelihood · FLIP2 Amylase by-mutation; held-out test set · Amylase
- benchmark: ESMC-300M naive supervised · FLIP2 Amylase by-mutation; held-out test set · Amylase
- benchmark: ESM2-650M likelihood · FLIP2 Amylase by-mutation; held-out test set · Amylase
- benchmark: CARP-640M supervised · FLIP2 Amylase by-mutation; held-out test set · Amylase
- benchmark: Ridge (one-hot + likelihoods) · FLIP2 Amylase by-mutation; held-out test set · Amylase
- benchmark: ESMC-300M supervised · FLIP2 Amylase by-mutation; held-out test set · Amylase
- subject: FLIP2 Amylase by-mutation; held-out test set: benchmark membership