Configuration

Seeded random ranking control (ProteinGym v1.3 AMFR substitution assay)

One seed-0 random ranking on all 2,972 AMFR variants. This is one complete assay, not the full ProteinGym track or an estimate of a chance-performance interval.

1 evaluation · 5 results

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Evaluations and results

1 evaluation · 5 results. Different protocols are not a single leaderboard.

Protocol: ProteinGym v1.3 AMFR seeded-random control · Dataset subset: ProteinGym v1.3 AMFR stability assay, 2,972 variants

Sorted by AUROC (higher is better). The best value in each column is highlighted. Decimals are rounded for display; each value links to the printed value and its source.

Tested configuration	AUROC	MCC	NDCG at 10%	Spearman	Top 10% recall
Seeded random ranking control (ProteinGym v1.3 AMFR substitution assay)Evaluation	0.514	0.019	0.526	0.008	0.087

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Seeded random ranking control (ProteinGym v1.3 AMFR substitution assay)	Protocol: ProteinGym v1.3 AMFR seeded-random control Dataset subset: ProteinGym v1.3 AMFR stability assay, 2,972 variants	0.514 AUROC unitless · higher Uncertainty: Not reported by the source: Not estimated; one selected evaluation. Coverage: 2972/2972 scored	Rewire evaluation · Source checked Methods, coverage and source Seeded random ranking control on ProteinGym v1.3 AMFR substitution assay ProteinGym v1.3 AMFR substitution assay Aggregation: Not reported Seeded random ranking control: report; Seeded random ranking control: audit · protocol_results.per_assay.AMFR_HUMAN_Tsuboyama_2023_4G3O.metrics.AUC
Configuration: Seeded random ranking control (ProteinGym v1.3 AMFR substitution assay)	Protocol: ProteinGym v1.3 AMFR seeded-random control Dataset subset: ProteinGym v1.3 AMFR stability assay, 2,972 variants	0.019 MCC unitless · higher Uncertainty: Not reported by the source: Not estimated; one selected evaluation. Coverage: 2972/2972 scored	Rewire evaluation · Source checked Methods, coverage and source Seeded random ranking control on ProteinGym v1.3 AMFR substitution assay ProteinGym v1.3 AMFR substitution assay Aggregation: Not reported Seeded random ranking control: report; Seeded random ranking control: audit · protocol_results.per_assay.AMFR_HUMAN_Tsuboyama_2023_4G3O.metrics.MCC
Configuration: Seeded random ranking control (ProteinGym v1.3 AMFR substitution assay)	Protocol: ProteinGym v1.3 AMFR seeded-random control Dataset subset: ProteinGym v1.3 AMFR stability assay, 2,972 variants	0.526 NDCG at 10% unitless · higher Uncertainty: Not reported by the source: Not estimated; one selected evaluation. Coverage: 2972/2972 scored	Rewire evaluation · Source checked Methods, coverage and source Seeded random ranking control on ProteinGym v1.3 AMFR substitution assay ProteinGym v1.3 AMFR substitution assay Aggregation: Not reported Seeded random ranking control: report; Seeded random ranking control: audit · protocol_results.per_assay.AMFR_HUMAN_Tsuboyama_2023_4G3O.metrics.NDCG
Configuration: Seeded random ranking control (ProteinGym v1.3 AMFR substitution assay)	Protocol: ProteinGym v1.3 AMFR seeded-random control Dataset subset: ProteinGym v1.3 AMFR stability assay, 2,972 variants	0.008 Spearman unitless · higher Uncertainty: Not reported by the source: Not estimated; one selected evaluation. Coverage: 2972/2972 scored	Rewire evaluation · Source checked Methods, coverage and source Seeded random ranking control on ProteinGym v1.3 AMFR substitution assay ProteinGym v1.3 AMFR substitution assay Aggregation: Not reported Seeded random ranking control: report; Seeded random ranking control: audit · protocol_results.per_assay.AMFR_HUMAN_Tsuboyama_2023_4G3O.metrics.Spearman
Configuration: Seeded random ranking control (ProteinGym v1.3 AMFR substitution assay)	Protocol: ProteinGym v1.3 AMFR seeded-random control Dataset subset: ProteinGym v1.3 AMFR stability assay, 2,972 variants	0.087 Top 10% recall unitless · higher Uncertainty: Not reported by the source: Not estimated; one selected evaluation. Coverage: 2972/2972 scored	Rewire evaluation · Source checked Methods, coverage and source Seeded random ranking control on ProteinGym v1.3 AMFR substitution assay ProteinGym v1.3 AMFR substitution assay Aggregation: Not reported Seeded random ranking control: report; Seeded random ranking control: audit · protocol_results.per_assay.AMFR_HUMAN_Tsuboyama_2023_4G3O.metrics.Top_recall

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Release 2026-11-02-a7f03c9e55a5 · Record review: source checked

2 source records and release history

Seeded random ranking control: report · Original source · 1663d1f04b2bbd6dfcff77fea78129d30b0de191
Seeded random ranking control: audit · Original source · 1663d1f04b2bbd6dfcff77fea78129d30b0de191

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Technical metadata and extraction receipts

Stable ID: rewire-local-20260921-configuration-proteingym-random

areas: proteins-complexes
source locator: model; model_configuration; protocol_configuration.embedding_probe; execution
configuration: baseline id: seeded-random-v1; baseline version: 1; limitation: One seeded control is not an uncertainty estimate; IDs bind the run; method: SHA256(seed:prepared_id), first 64 bits / 2**64; seed: 0
model: name: Seeded random ranking control; training overlap: no labelled fitting
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: 08cbbaac2aa8f60af5c43af7a83410e9690b44c5e4d162fbe1e5766885952fce; sif sha256: unreported
training overlap: no labelled fitting
method role: null control

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