rewirebio.iobenchmarks
Protocol

DeepProtein beta-lactamase (PEER): ρ ↑

Beta-lactamase activity regression, as distributed with PEER. Scored by Spearman rank correlation on the task's test split.

17 evaluations · 17 results

Overview

An explanatory profile has not yet been reviewed for this record.

Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.

17 recorded evaluations, 17 metric rows. A comparison chart has not yet been validated for these results. The table retains the individual findings and their sources.

View coverage and remaining gaps across all benchmarks

Results

Results are available, but no reviewed comparison panel is linked in this release.

All evaluations

17 evaluations · 17 results. Different protocols are not a single leaderboard.

Protocol: DeepProtein beta-lactamase (PEER): ρ ↑ · Dataset: beta-lactamase (PEER)

Sorted by Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split) (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.

All 17 result rows with coverage, uncertainty and sources
Filter evaluations

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configurationProtocol and datasetFindingEvidence and details
Configuration: AttentiveFP (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.058±0.011 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.011

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

AttentiveFP on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'AttentiveFP', column group 'β-lactamase', column 'ρ ↑'
Configuration: ChemLLM-7B (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.017 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

ChemLLM-7B on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'ChemLLM-7B', column group 'β-lactamase', column 'ρ ↑'
Configuration: CNN (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.721 ± 0.020 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.020

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

CNN on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'CNN', column group 'β-lactamase', column 'ρ ↑'
Configuration: CNN-RNN (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.695±0.012 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.012

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

CNN-RNN on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'CNN-RNN', column group 'β-lactamase', column 'ρ ↑'
Configuration: Deep Prot-T5 (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.874** Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

Deep Prot-T5 on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'Deep Prot-T5', column group 'β-lactamase', column 'ρ ↑'
Configuration: ESM-1b (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.664 ± 0.002 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.002

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

ESM-1b on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'ESM-1b', column group 'β-lactamase', column 'ρ ↑'
Configuration: ESM-2-650M (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.694 ± 0.001 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.001

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

ESM-2-650M on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'ESM-2-650M', column group 'β-lactamase', column 'ρ ↑'
Configuration: GAT (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.196±0.013 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.013

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

GAT on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'GAT', column group 'β-lactamase', column 'ρ ↑'
Configuration: GCN (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.450±0.006 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.006

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

GCN on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'GCN', column group 'β-lactamase', column 'ρ ↑'
Configuration: Graphormer (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.067±0.046 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.046

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

Graphormer on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'Graphormer', column group 'β-lactamase', column 'ρ ↑'
Configuration: LlaSMol-Mistral-7B (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
NaN Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

LlaSMol-Mistral-7B on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'LlaSMol-Mistral-7B', column group 'β-lactamase', column 'ρ ↑'
Configuration: MPNN (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.068±0.015 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.015

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

MPNN on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'MPNN', column group 'β-lactamase', column 'ρ ↑'
Configuration: NeuralFP (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.171±0.007 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.007

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

NeuralFP on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'NeuralFP', column group 'β-lactamase', column 'ρ ↑'
Configuration: PAGTN (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.092±0.018 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.018

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

PAGTN on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'PAGTN', column group 'β-lactamase', column 'ρ ↑'
Configuration: Prot-T5-XL (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.756 ± 0.003 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.003

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

Prot-T5-XL on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'Prot-T5-XL', column group 'β-lactamase', column 'ρ ↑'
Configuration: ProtBert (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.572 ± 0.001 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.001

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

ProtBert on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'ProtBert', column group 'β-lactamase', column 'ρ ↑'
Configuration: Transformer (DeepProtein benchmark)Protocol: DeepProtein beta-lactamase (PEER): ρ ↑
Dataset: beta-lactamase (PEER)
0.310±0.041 Spearman (Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split)
unitless · higher

Uncertainty: SD 0.041

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

Transformer on DeepProtein beta-lactamase (PEER) (ρ ↑)

lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

Aggregation: Not reported

DeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'Transformer', column group 'β-lactamase', column 'ρ ↑'

Source checking is not independent reproduction. Release 2026-10-22-1b7cf027e4f6.

Methods and evaluation design

Procedure, tasks and evaluated configurations

Recorded evaluations

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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
17

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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 (gzip) · Model evaluation matrix (gzip) · Source table (gzip) · Release and checksums (gzip)

Coverage is derived from release 2026-10-22-1b7cf027e4f6. Source citations describe the original records; they do not validate an unreviewed baseline proposal. No results have been generated by this audit.

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Evidence

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Evidence table

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Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

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Technical metadata and extraction receipts

Stable ID: lit-protein-20261011-deepprotein-protocol-beta-lactamase-rho

areas
protein-function
contexts
research
protocol
Train on the task's training split and score beta-lactamase (PEER) on its test split; five random seeds per method, mean and standard deviation reported.
metric
spearman-correlation
metric direction
higher
unit
unitless
metric qualifier
Spearman rank correlation, as defined in the article's Evaluation metrics section; supervised split
version
As published 2025
source locator
beta-lactamase (PEER): column 'ρ ↑' of its table in Tables 2 to 8
replicates
Five random seeds (table footnote a: 'we used five different random seeds to perform independent runs, reporting the average results along with their standard deviations')
limitations
Author-reported results: the DeepProtein authors ran every method.
dataset
beta-lactamase (PEER); train/valid/test 4158/520/520
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