Strengths and considerations
No source-reviewed explanatory claims are recorded here yet.
Configuration
Transformer
Transformer as evaluated in the cited study. Transformer architecture in Table 2; single-task supervised encoder plus MLP; interaction additionally uses ESM-1b protein embeddings
GlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column DomainAt a glance
Explanatory profile: limited source coverage · Automated source review, 2026-09-17. Review applies to the cited claims; unresolved fields are listed below. Numerical results retain their own review status.
How it works
Evaluation in this paper
Transformer architecture in Table 2; single-task supervised encoder plus MLP; interaction additionally uses ESM-1b protein embeddings
GlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column DomainEvaluations and results
Release 2026-09-17-d277315f7d76 · 11 evaluations · 11 metric rows. Different protocols are not a single leaderboard.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| Transformer: SugarBase taxonomy · Species Configuration: TransformerProtocol: SugarBase taxonomy · Species (GlycanML taxonomy prediction)Dataset: SugarBase taxonomy · Species Author-reported single-task models on the same held-out task; not a cross-paper ranking. SugarBase taxonomy: motif-frequency K-means cluster allocation 8:1:1. Author-reported evaluation · Evaluation metadata: needs review | ||
| 27.49(1.20)% accuracy Unit: percent · Direction: higher | Uncertainty: type: standard deviation; value: 1.2; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Species Source checking is not independent reproduction. |
| Transformer: SugarBase taxonomy · Order Configuration: TransformerProtocol: SugarBase taxonomy · Order (GlycanML taxonomy prediction)Dataset: SugarBase taxonomy · Order Author-reported single-task models on the same held-out task; not a cross-paper ranking. SugarBase taxonomy: motif-frequency K-means cluster allocation 8:1:1. Author-reported evaluation · Evaluation metadata: needs review | ||
| 38.30(1.10)% accuracy Unit: percent · Direction: higher | Uncertainty: type: standard deviation; value: 1.1; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Order Source checking is not independent reproduction. |
| Transformer: SugarBase taxonomy · Domain Configuration: TransformerProtocol: SugarBase taxonomy · Domain (GlycanML taxonomy prediction)Dataset: SugarBase taxonomy · Domain Author-reported single-task models on the same held-out task; not a cross-paper ranking. SugarBase taxonomy: motif-frequency K-means cluster allocation 8:1:1. Author-reported evaluation · Evaluation metadata: needs review | ||
| 91.98(0.27)% accuracy Unit: percent · Direction: higher | Uncertainty: type: standard deviation; value: 0.27; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Domain Source checking is not independent reproduction. |
| Transformer: SugarBase taxonomy · Genus Configuration: TransformerProtocol: SugarBase taxonomy · Genus (GlycanML taxonomy prediction)Dataset: SugarBase taxonomy · Genus Author-reported single-task models on the same held-out task; not a cross-paper ranking. SugarBase taxonomy: motif-frequency K-means cluster allocation 8:1:1. Author-reported evaluation · Evaluation metadata: needs review | ||
| 27.97(1.61)% accuracy Unit: percent · Direction: higher | Uncertainty: type: standard deviation; value: 1.61; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Genus Source checking is not independent reproduction. |
| Transformer: SugarBase taxonomy · Family Configuration: TransformerProtocol: SugarBase taxonomy · Family (GlycanML taxonomy prediction)Dataset: SugarBase taxonomy · Family Author-reported single-task models on the same held-out task; not a cross-paper ranking. SugarBase taxonomy: motif-frequency K-means cluster allocation 8:1:1. Author-reported evaluation · Evaluation metadata: needs review | ||
| 33.30(0.86)% accuracy Unit: percent · Direction: higher | Uncertainty: type: standard deviation; value: 0.86; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Family Source checking is not independent reproduction. |
| Transformer: SugarBase taxonomy · Kingdom Configuration: TransformerProtocol: SugarBase taxonomy · Kingdom (GlycanML taxonomy prediction)Dataset: SugarBase taxonomy · Kingdom Author-reported single-task models on the same held-out task; not a cross-paper ranking. SugarBase taxonomy: motif-frequency K-means cluster allocation 8:1:1. Author-reported evaluation · Evaluation metadata: needs review | ||
| 87.34(1.16)% accuracy Unit: percent · Direction: higher | Uncertainty: type: standard deviation; value: 1.16; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Kingdom Source checking is not independent reproduction. |
| Transformer: SugarBase immunogenicity · Immuno Configuration: TransformerProtocol: SugarBase immunogenicity · Immuno (GlycanML immunogenicity prediction)Dataset: SugarBase immunogenicity · Immuno Author-reported single-task models on the same held-out task; not a cross-paper ranking. Taxonomy, immunogenicity and glycosylation: motif-frequency K-means cluster allocation 8:1:1. Interaction: MMseqs2 protein clusters at minimum identity 0.5 allocated 8:1:1. Exact counts are attached to each column. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.729(0.069) AUPRC Unit: dimensionless · Direction: higher | Uncertainty: type: standard deviation; value: 0.069; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Immuno Source checking is not independent reproduction. |
| Transformer: SugarBase taxonomy · Phylum Configuration: TransformerProtocol: SugarBase taxonomy · Phylum (GlycanML taxonomy prediction)Dataset: SugarBase taxonomy · Phylum Author-reported single-task models on the same held-out task; not a cross-paper ranking. SugarBase taxonomy: motif-frequency K-means cluster allocation 8:1:1. Author-reported evaluation · Evaluation metadata: needs review | ||
| 80.49(1.91)% accuracy Unit: percent · Direction: higher | Uncertainty: type: standard deviation; value: 1.91; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Phylum Source checking is not independent reproduction. |
| Transformer: SugarBase taxonomy · Class Configuration: TransformerProtocol: SugarBase taxonomy · Class (GlycanML taxonomy prediction)Dataset: SugarBase taxonomy · Class Author-reported single-task models on the same held-out task; not a cross-paper ranking. SugarBase taxonomy: motif-frequency K-means cluster allocation 8:1:1. Author-reported evaluation · Evaluation metadata: needs review | ||
| 62.13(1.47)% accuracy Unit: percent · Direction: higher | Uncertainty: type: standard deviation; value: 1.47; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Class Source checking is not independent reproduction. |
| Transformer: LectinOracle interaction · Interaction Configuration: TransformerProtocol: LectinOracle interaction · Interaction (GlycanML protein-glycan interaction prediction)Dataset: LectinOracle interaction · Interaction Author-reported single-task models on the same held-out task; not a cross-paper ranking. Taxonomy, immunogenicity and glycosylation: motif-frequency K-means cluster allocation 8:1:1. Interaction: MMseqs2 protein clusters at minimum identity 0.5 allocated 8:1:1. Exact counts are attached to each column. Author-reported evaluation · Evaluation metadata: needs review | ||
| 0.244(0.009) Spearman rho Unit: dimensionless · Direction: higher | Uncertainty: type: standard deviation; value: 0.009; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Interaction Source checking is not independent reproduction. |
| Transformer: GlyConnect glycosylation · Glycos Configuration: TransformerProtocol: GlyConnect glycosylation · Glycos (GlycanML glycosylation type prediction)Dataset: GlyConnect glycosylation · Glycos Author-reported single-task models on the same held-out task; not a cross-paper ranking. Taxonomy, immunogenicity and glycosylation: motif-frequency K-means cluster allocation 8:1:1. Interaction: MMseqs2 protein clusters at minimum identity 0.5 allocated 8:1:1. Exact counts are attached to each column. Author-reported evaluation · Evaluation metadata: needs review | ||
| 95.90(1.45)% accuracy Unit: percent · Direction: higher | Uncertainty: type: standard deviation; value: 1.45; n: 3; unit: same as metric Scored: Not reported · Eligible: Not reported | source checkedGlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Table 3, row Transformer, column Glycos Source checking is not independent reproduction. |
Strengths and limitations
Limitations and conditions
No source-reviewed explanatory claims are recorded here yet.
Profile review details
Primary-source transcription and separate automated review. No human sign-off or experimental reproduction.
Stable record: paper-model-ca686150d56cf81427Evidence 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.
2 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Evaluation in this paper Transformer architecture in Table 2; single-task supervised encoder plus MLP; interaction additionally uses ESM-1b protein embeddings Individual claims | GlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning Table 3, row Transformer, column Domain Version: arXiv:2405.16206v1, 2024-05-25 | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated review. No human sign-off or experimental reproduction. Field: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
| Introduction Transformer as evaluated in the cited study. Transformer architecture in Table 2; single-task supervised encoder plus MLP; interaction additionally uses ESM-1b protein embeddings Individual claims | GlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning Table 3, row Transformer, column Domain Version: arXiv:2405.16206v1, 2024-05-25 | source checked automated source review · 2026-09-17 Audit detailsPrimary-source transcription and separate automated review. No human sign-off or experimental reproduction. Field: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
Sources and history
Release 2026-09-17-d277315f7d76 · Record review: needs review
- GlycanML: A Multi-Task and Multi-Structure Benchmark for Glycan Machine Learning · Original source · arXiv:2405.16206v1, 2024-05-25
Technical metadata and extraction receipts
Stable ID: paper-model-ca686150d56cf81427
- areas
- glycomics
- entity level
- method
- configuration type
- reported_configuration
- version
- Transformer architecture in Table 2; single-task supervised encoder plus MLP; interaction additionally uses ESM-1b protein embeddings
- legacy kinds
- model
- entity classification
- review date: 2026-09-17; rationale: This source-scoped entry preserves the method/configuration actually named in an evaluation. It is neither a global family identity nor proof of an immutable checkpoint; the linked evaluation retains adaptation, fitting and scoring details.; source ids: expansion-p3-glycanml-2405-16206v1; source locator: Table 3, row Transformer, column Domain; ambiguities: Configuration means the source-labelled evaluated identity. It does not establish missing checkpoint hashes, default settings or equivalence to same-named records in other papers.
Related records
- model: Transformer: SugarBase taxonomy · Class
- model: Transformer: SugarBase immunogenicity · Immuno
- model: Transformer: SugarBase taxonomy · Family
- model: Transformer: SugarBase taxonomy · Species
- model: Transformer: LectinOracle interaction · Interaction
- model: Transformer: SugarBase taxonomy · Genus
- model: Transformer: SugarBase taxonomy · Phylum
- model: Transformer: GlyConnect glycosylation · Glycos
- model: Transformer: SugarBase taxonomy · Order
- model: Transformer: SugarBase taxonomy · Domain
- model: Transformer: SugarBase taxonomy · Kingdom