Macro F1 (averaged macro F1 (Figure 3 caption: 'averaged macro F1'), printed on a 0 to 100 scale) of Prot-T5-XL (DeepProtein benchmark) on Solubility (PEER)
62.75 ± 0.76% Macro F1 (averaged macro F1 (Figure 3 caption: 'averaged macro F1'), printed on a 0 to 100 scale)
Methods
- Tested configuration
- Prot-T5-XL (DeepProtein benchmark)
- Protocol
- DeepProtein Solubility (PEER): Averaged F1 ↑
- Dataset
- Solubility (PEER)
- Procedure
- DeepProtein Solubility (PEER): Averaged F1 ↑
- Evaluation
- Prot-T5-XL on DeepProtein Solubility (PEER) (Averaged F1 ↑)
- Coverage
- Not reported scored / Not reported eligible
- Uncertainty
- SD 0.76
- Evidence
- Author-reported evaluation · source checkedDeepProtein: deep learning library and benchmark for protein sequence learning · Table 2. row 'Prot-T5-XL', column group 'Solubility', column 'Averaged F1 ↑'
A source-checked result verifies the numerical transcription, not every model or protocol detail. Evaluation metadata: source checked. Source checked does not mean independently reproduced.
Reproduction
- Split
- 62478/6942/1999
- Adaptation
- Trained on the task's training split with the DeepProtein default configuration
- Scoring implementation
- averaged macro F1 (Figure 3 caption: 'averaged macro F1'), printed on a 0 to 100 scale
No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.
Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.
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 |
|---|---|---|
| Reported result 62.75 ± 0.76 Individual claims | DeepProtein: deep learning library and benchmark for protein sequence learning Table 2. row 'Prot-T5-XL', column group 'Solubility', column 'Averaged F1 ↑' Version: Version of record, Bioinformatics 2025 (PMC12553333 JATS full text) | source checked ["source-hash-verification","deterministic-table-parse","independent-cell-check"] · 2026-10-11 author reported Source has a recorded evidence concern. Consult its source page before using the claim. Audit detailsExtraction: Parsed the pinned Europe PMC JATS XML with extract_deepprotein.py (table-wrap grid with rowspan and colspan expanded, two header rows and the split-size row asserted); row and column labels asserted. Table 2. row 'Prot-T5-XL', column group 'Solubility', column 'Averaged F1 ↑' Independent review 2026-10-11: value, locator, metric, unit, direction and linked configuration and protocol checked; corrections from the review applied by the extractor as listed in review.md. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Extraction artifact SHA-256: |
Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
1 source record and release history
- DeepProtein: deep learning library and benchmark for protein sequence learning · Original source · Version of record, Bioinformatics 2025 (PMC12553333 JATS full text)
Technical metadata and extraction receipts
Stable ID: lit-protein-20261011-deepprotein-result-solubility-avg-f1-prot-t5-xl
- metric
- macro-f1
- metric direction
- higher
- unit
- percent
- printed value
- 62.75 ± 0.76
- source locator
- Table 2. row 'Prot-T5-XL', column group 'Solubility', column 'Averaged F1 ↑'
- review
- method: source-hash-verification; deterministic-table-parse; independent-cell-check; method note: Reviewer re-retrieved the Europe PMC JATS XML and matched its SHA-256; an independent JATS table-grid parse compared all 436 results (printed and numeric values and spreads) with 0 mismatches; a hand sample of 49 values across Tables 2 to 8 matched.; reviewer: claude; reviewer note: Claude review agent reviewer-ps-1, independent of the extractor lit-protein-structure; no human review claimed; date: 2026-10-11; artifact sha256: b586921363170806d9f332afb37762ea61f464da6067a3ef0ab8853281964b7f; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC12553333/fullTextXML; note: Extraction: Parsed the pinned Europe PMC JATS XML with extract_deepprotein.py (table-wrap grid with rowspan and colspan expanded, two header rows and the split-size row asserted); row and column labels asserted. Table 2. row 'Prot-T5-XL', column group 'Solubility', column 'Averaged F1 ↑' Independent review 2026-10-11: value, locator, metric, unit, direction and linked configuration and protocol checked; corrections from the review applied by the extractor as listed in review.md.
- numeric value
- 62.75
- metric qualifier
- averaged macro F1 (Figure 3 caption: 'averaged macro F1'), printed on a 0 to 100 scale
- uncertainty
- type: standard_deviation; value: 0.76; printed: 62.75 ± 0.76; n: 5; scope: 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')
- printed value basis
- Mean plus or minus standard deviation over five random seeds as printed