GlycanML evaluation of Graphormer on GlycanGT study: domain Accuracy, scored with Accuracy.
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1 evaluation · 1 result. Different protocols are not a single leaderboard.
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| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Graphormer | Protocol: GlycanML domain Accuracy: GlycanGT study: domain Accuracy Dataset subset: SugarBase taxonomy domain; GlycanML official motif split (GlycanML split) | 0.947044 ± 0.0087279999999999996 accuracy fraction · higher Uncertainty: type: standard_deviation; value: 0.0087279999999999996 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceGraphormer on GlycanML domain Accuracy: GlycanGT study: domain Accuracy Taxonomy: 13,209 glycans total across eight levels, 4–1,737 classes per level. Official fixed GlycanML motif-based train/validation/test splits (8:1:1). Section 2.5 reports class-balanced classifiers, train ∪ validation hyperparameter selection by randomized search with 3-fold cross-validation, followed by one evaluation on the held-out test set; complete procedure repeated with three random seeds, reporting mean and standard deviation. GlycanGT large model pretrained with 35% masking provides [Graph] embeddings to SVM/LightGBM; the selected classifier for each S4 row is not identified. Section 2.6 states that all four graph baselines were trained and evaluated on the same datasets/splits; it does not establish that each baseline used the GlycanGT downstream classifier search. SVM search: 10 iterations, RBF/linear, C logU(1e-3,1e2), gamma logU(1e-4,1e-1); LightGBM: 15 randomized iterations. Do not combine with separate original GlycanML-paper protocols. Aggregation: Not reported GlycanGT published supplementary archive, Table S4; glycangt: Journal full-text XML · btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) |
Source checking is not independent reproduction. Release 2026-09-29-06401fd5b220.
Taxonomy: 13,209 glycans total across eight levels, 4–1,737 classes per level. Official fixed GlycanML motif-based train/validation/test splits (8:1:1). Section 2.5 reports class-balanced classifiers, train ∪ validation hyperparameter selection by randomized search with 3-fold cross-validation, followed by one evaluation on the held-out test set; complete procedure repeated with three random seeds, reporting mean and standard deviation. GlycanGT large model pretrained with 35% masking provides [Graph] embeddings to SVM/LightGBM; the selected classifier for each S4 row is not identified. Section 2.6 states that all four graph baselines were trained and evaluated on the same datasets/splits; it does not establish that each baseline used the GlycanGT downstream classifier search. SVM search: 10 iterations, RBF/linear, C logU(1e-3,1e2), gamma logU(1e-4,1e-1); LightGBM: 15 randomized iterations. Do not combine with separate original GlycanML-paper protocols.
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34 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.adaptation Task-specific supervised prediction as described in primary paper Sections 2.5–2.6; three random seeds; not a frozen zero-shot evaluation. Context-only references | glycangt: Journal full-text XML btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Primary article XML snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| attributes.adaptation Task-specific supervised prediction as described in primary paper Sections 2.5–2.6; three random seeds; not a frozen zero-shot evaluation. Context-only references | GlycanGT published supplementary archive, Table S4 btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Published Bioinformatics btag147 supplementary archive, retrieved 2026-09-23; Table_S4.xlsx SHA-256 d7c35909bac6bcb78ca8fdb32c0463f05e692f15861a8184e65e415e7216f493 | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.metric_implementation Accuracy Context-only references | glycangt: Journal full-text XML btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Primary article XML snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| attributes.comparison.metric_implementation Accuracy Context-only references | GlycanGT published supplementary archive, Table S4 btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Published Bioinformatics btag147 supplementary archive, retrieved 2026-09-23; Table_S4.xlsx SHA-256 d7c35909bac6bcb78ca8fdb32c0463f05e692f15861a8184e65e415e7216f493 | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.protocol_id glycangt-2026-table-s4-task-domain-accuracy Context-only references | glycangt: Journal full-text XML btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Primary article XML snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| attributes.comparison.protocol_id glycangt-2026-table-s4-task-domain-accuracy Context-only references | GlycanGT published supplementary archive, Table S4 btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Published Bioinformatics btag147 supplementary archive, retrieved 2026-09-23; Table_S4.xlsx SHA-256 d7c35909bac6bcb78ca8fdb32c0463f05e692f15861a8184e65e415e7216f493 | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.evidence_overlap Same-study reported cells, not independent new experimental evidence. Keep distinct from original GlycanML tables and reused descriptions. Context-only references | glycangt: Journal full-text XML btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Primary article XML snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| attributes.evidence_overlap Same-study reported cells, not independent new experimental evidence. Keep distinct from original GlycanML tables and reused descriptions. Context-only references | GlycanGT published supplementary archive, Table S4 btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Published Bioinformatics btag147 supplementary archive, retrieved 2026-09-23; Table_S4.xlsx SHA-256 d7c35909bac6bcb78ca8fdb32c0463f05e692f15861a8184e65e415e7216f493 | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.origin author_reported Context-only references | glycangt: Journal full-text XML btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Primary article XML snapshot | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| attributes.origin author_reported Context-only references | GlycanGT published supplementary archive, Table S4 btag147_supplementary_data.zip / Table_S4.xlsx / Sheet1!A88:E88 (mean D88, SD E88) Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Published Bioinformatics btag147 supplementary archive, retrieved 2026-09-23; Table_S4.xlsx SHA-256 d7c35909bac6bcb78ca8fdb32c0463f05e692f15861a8184e65e415e7216f493 | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
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Release 2026-09-29-06401fd5b220 · Record review: source checked
Stable ID: glycangt-2026-table-s4-evaluation-graphormer-domain-accuracy