Evaluation

LSTM (no pretraining): Rocklin designed-protein stability

Test 17 one-mutation neighbourhoods around candidate proteins; train on broad experimental design rounds

Evaluation procedure

Test 17 one-mutation neighbourhoods around candidate proteins; train on broad experimental design rounds

Configuration: LSTM (no pretraining)
Task: TAPE Stability
Dataset: TAPE Stability source dataset

origin: Author-reported evaluation
configuration: No pretraining; original TAPE paper task-specific supervised head
protocol id: discovery-benchmark-tape-stability
dataset version: Not reported
split: Test 17 one-mutation neighbourhoods around candidate proteins; train on broad experimental design rounds
subset: Not reported
population: count: 12839; unit: protein variants
aggregation: Not reported
inputs: Not reported
adaptation: No pretraining; original TAPE paper task-specific supervised head
budget: Not reported
metric implementation: Not reported

Metadata review: needs review. Unreported conditions prevent automatic comparisons.

Evaluation results

Release 2026-09-17-d277315f7d76 · 1 evaluation · 1 metric row. Different protocols are not a single leaderboard.

Evaluation setupMetricEvidence origin

Results grouped by the exact reported evaluation
Metric and finding	Coverage and uncertainty	Evidence
LSTM (no pretraining): Rocklin designed-protein stability Configuration: LSTM (no pretraining)Task: TAPE StabilityDataset: TAPE Stability source dataset Test 17 one-mutation neighbourhoods around candidate proteins; train on broad experimental design rounds Author-reported evaluation · Evaluation metadata: needs review
0.28 Spearman's rho Unit: correlation · Direction: higher	Uncertainty: unreported Scored: Not reported · Eligible: Not reported	source checkedtape primary benchmark evidence · Table2,p.7,row2(No pretraining/LSTM),columnStability Source checking is not independent reproduction.

Evidence table

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 2026-09-17-d277315f7d76
Property and statement	Original source and location	Review and provenance
attributes.comparison.adaptation No pretraining; original TAPE paper task-specific supervised head Context-only references	tape primary benchmark evidence Original source ↗ Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	not individually reviewed No individual claim review recorded author reported Audit details Field: `attributes.comparison.adaptation` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.aggregation No value recorded Context-only references	tape primary benchmark evidence Original source ↗ Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.aggregation` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.budget No value recorded Context-only references	tape primary benchmark evidence Original source ↗ Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.budget` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.dataset_version No value recorded Context-only references	tape primary benchmark evidence Original source ↗ Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.dataset_version` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.inputs No value recorded Context-only references	tape primary benchmark evidence Original source ↗ Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.inputs` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.metric_implementation No value recorded Context-only references	tape primary benchmark evidence Original source ↗ Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	missing or unspecified No individual claim review recorded author reported Audit details Field: `attributes.comparison.metric_implementation` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.population.count 12839 Context-only references	tape primary benchmark evidence Original source ↗ Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	not individually reviewed No individual claim review recorded author reported Audit details Field: `attributes.comparison.population.count` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.population.unit protein variants Context-only references	tape primary benchmark evidence Original source ↗ Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	not individually reviewed No individual claim review recorded author reported Audit details Field: `attributes.comparison.population.unit` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.protocol_id discovery-benchmark-tape-stability Context-only references	tape primary benchmark evidence Original source ↗ Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	not individually reviewed No individual claim review recorded author reported Audit details Field: `attributes.comparison.protocol_id` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
attributes.comparison.split Test 17 one-mutation neighbourhoods around candidate proteins; train on broad experimental design rounds Context-only references	tape primary benchmark evidence Original source ↗ Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability Version: 1906.08230v1 Retrieved: 2026-09-16T20:23:48.238777+00:00	not individually reviewed No individual claim review recorded author reported Audit details Field: `attributes.comparison.split` Source artifact SHA-256: `6ee0c3e6e870635cba8fa67e0a4abc5598c0ab2a10ba127a46b67ac450ae0168` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact

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Sources and history

Release 2026-09-17-d277315f7d76 · Record review: needs review

tape primary benchmark evidence · Original source · 1906.08230v1

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Technical metadata and extraction receipts

Stable ID: paper-evaluation-2537d7c2f8674a0f51

areas: protein-function
origin: author_reported
protocol: Test 17 one-mutation neighbourhoods around candidate proteins; train on broad experimental design rounds
version: No pretraining; original TAPE paper task-specific supervised head
comparison: protocol id: discovery-benchmark-tape-stability; dataset version: Not reported; split: Test 17 one-mutation neighbourhoods around candidate proteins; train on broad experimental design rounds; subset: Not reported; population: count: 12839; unit: protein variants; aggregation: Not reported; inputs: Not reported; adaptation: No pretraining; original TAPE paper task-specific supervised head; budget: Not reported; metric implementation: Not reported
source locator: Results on downstream supervised tasks; Table2,p.7,row1(No pretraining/Transformer),columnStability; Table2,p.7,row2(No pretraining/LSTM),columnStability; Table2,p.7,row3(No pretraining/ResNet),columnStability; Table2,p.7,row4(Self-supervised pretraining/Transformer),columnStability; Table2,p.7,row5(Self-supervised pretraining/LSTM),columnStability; Table2,p.7,row6(Self-supervised pretraining/ResNet),columnStability; Table2,p.7,row7(Supervised pretraining/Bepler supervised LSTM),columnStability; Table2,p.7,row8(Self-supervised pretraining/UniRep mLSTM),columnStability; Table2,p.7,row9(One-hot baseline/One-hot),columnStability; Table2,p.7,row10(Task-specific alignment/HMM baseline/Alignment),columnStability
missing metadata: checkpoint revision: unextracted; budget: unreported; split manifest: unextracted

Related records

model: LSTM (no pretraining)
benchmark: TAPE Stability
dataset: TAPE Stability source dataset
evaluation: LSTM: Spearman's rho on Rocklin designed-protein stability

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