Model type
Protein sequence transformer; this record is the paper-specific evaluated configuration.
Pipeline
ESM-2 embedding + paper classifier
This record tracks the ESM-2-feature configuration in a supervised clathrin-classification study.
Sources
Advancing the accuracy of clathrin protein prediction through multi-source protein language models · Materials and methods/Feature selection method (paragraph 1); Introduction (paragraph 3)How it worksEvaluated procedure (conceptual)
Conceptual input–method–output guide. Check the procedure text and linked evaluation for fitted components, additional inputs and exact settings.
Sources
Advancing the accuracy of clathrin protein prediction through multi-source protein language models · Materials and methods/Overall framework of PLM-CLA (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1)At a glance
Biological inputs
Protein amino-acid sequences
Sources
Advancing the accuracy of clathrin protein prediction through multi-source protein language models · Introduction (paragraph 2); Conclusion (paragraph 1)Outputs
Clathrin versus non-clathrin classification
Sources
Advancing the accuracy of clathrin protein prediction through multi-source protein language models · Results and discussions/Performance evaluation of individual feature embeddings (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1)limited source coverage · Automated source review, 2026-09-16. All specifications and missing details
Evaluations and results
Release 2026-09-17-d277315f7d76 · 1 evaluation · 1 metric row. Different protocols are not a single leaderboard.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| ESM-2 embedding + paper classifier: clathrin protein classification Pipeline: ESM-2 embedding + paper classifierTask: clathrin protein classificationDataset: CLA-IND0.6 single-feature ESM-2 embedding comparison Independent external evaluation · Evaluation metadata: needs review | ||
| 0.916 accuracy Unit: fraction · Direction: unknown | Uncertainty: not reported in legacy extract Scored: Not reported · Eligible: Not reported | source checkedAdvancing the accuracy of clathrin protein prediction through multi-source protein language models · Table 2, Independent test / ESM-2 row, ACC column Source checking is not independent reproduction. |
How it works
How the evaluated method works
Pretrained protein embeddings are used as features for a downstream classifier. The paper also studies fused multi-model features and an LSTM; those combined PLM-CLA results must remain distinct from this ESM-2-only feature row.
Sources
Advancing the accuracy of clathrin protein prediction through multi-source protein language models · Materials and methods/Overall framework of PLM-CLA (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1)Underlying method and version boundaries
ESM-2 is a transformer protein language-model family. The official repository exposes residue embeddings, sequence-level pooling and models at several sizes; the study configuration determines which of these is evaluated.
Sources
facebookresearch/esm README.md · README.md; introduction, model description, pretrained-model and usage sections at pinned revisionWhat was evaluated
The linked evaluation record identifies ESM-2 embedding + paper classifier: clathrin protein classification. Its dataset, split, adaptation and evidence origin remain attached to the reported results.
Sources
Advancing the accuracy of clathrin protein prediction through multi-source protein language models · The named evaluation’s methods and comparison table; exact preserved evaluation IDs: evaluation-b2-clathrin-plm-2025Strengths and limitations
Strengths and considerations
- Allows a controlled comparison of learned protein representations within a fixed classification study.
Sources
Advancing the accuracy of clathrin protein prediction through multi-source protein language models · Introduction (paragraph 3); Materials and methods/Protein language model (paragraph 1)
Limitations and conditions
- The record identifies a feature-extractor configuration, not an independently validated clathrin capability of the foundation model.
Sources
Advancing the accuracy of clathrin protein prediction through multi-source protein language models · Results and discussions/Performance evaluation of individual feature embeddings (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1)
Profile review details
Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction.
Stable record: reported-model-e4710b1c3facf2Specifications
Inputs, training, access and other details
Explanatory profile: limited source coverage · Automated source review, 2026-09-16. Review applies to the cited claims; unresolved fields are listed below. Numerical results retain their own review status.
| Property | Description and evidence |
|---|---|
| Model type | Protein sequence transformer; this record is the paper-specific evaluated configuration.Sourcesfacebookresearch/esm README.md · README.md model description |
| Architecture / procedure | Pretrained protein embeddings are used as features for a downstream classifier. The paper also studies fused multi-model features and an LSTM; those combined PLM-CLA results must remain distinct from this ESM-2-only feature row.SourcesAdvancing the accuracy of clathrin protein prediction through multi-source protein language models · Materials and methods/Overall framework of PLM-CLA (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1) |
| Biological inputs | Protein amino-acid sequencesSourcesAdvancing the accuracy of clathrin protein prediction through multi-source protein language models · Introduction (paragraph 2); Conclusion (paragraph 1) |
| Outputs | Clathrin versus non-clathrin classificationSourcesAdvancing the accuracy of clathrin protein prediction through multi-source protein language models · Results and discussions/Performance evaluation of individual feature embeddings (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1) |
| Parameters | An aggregate parameter total for this exact evaluated configuration is not established by the inspected sources. · Not reported in inspected sourcesSources (2)Advancing the accuracy of clathrin protein prediction through multi-source protein language models; facebookresearch/esm README.md · Materials and methods/Dataset construction; Materials and methods/Protein language model; Materials and methods/Feature selection method; Materials and methods/Overall framework of PLM-CLA; Materials and methods/Performance evaluation; Results and discussions/The effect of feature selection methods on the predictive performance; Results and discussions/Comparison of PLM-CLA with existing methods; inspected for aggregate parameter count (component sizes are not added without an exact configuration); README.md at pinned repository revision |
| Known versions / configuration | ESM-2 embedding + paper classifier is the comparison-table label; that label does not specify an immutable weight revision. · Not reported in inspected sourcesSourcesAdvancing the accuracy of clathrin protein prediction through multi-source protein language models · Model identification in the comparison table and corresponding Methods; immutable checkpoint revision is not supplied by the table label. |
| Training data / fitting | Le2019 and Zhang2020 clathrin datasets; Zhang2020 applies a 0.7 BLAST redundancy threshold and excludes sequences shorter than 220 residues.SourcesAdvancing the accuracy of clathrin protein prediction through multi-source protein language models · Materials and methods/Dataset construction (paragraph 1); Results and discussions/Performance evaluation of PLM-CLA on other benchmark independent test datasets (paragraph 1) |
| Context limits | A maximum input/context length for this exact evaluated configuration is not established by the inspected sources. · Not reported in inspected sourcesSources (2)Advancing the accuracy of clathrin protein prediction through multi-source protein language models; facebookresearch/esm README.md · Materials and methods/Dataset construction; Materials and methods/Protein language model; Materials and methods/Feature selection method; Materials and methods/Overall framework of PLM-CLA; Materials and methods/Performance evaluation; Results and discussions/The effect of feature selection methods on the predictive performance; Results and discussions/Comparison of PLM-CLA with existing methods; inspected for explicit maximum input length (dataset lengths and family-wide limits are not substituted); README.md at pinned repository revision |
| Access | Official upstream implementation and usage documentation: https://github.com/facebookresearch/esm/blob/2b369911bb5b4b0dda914521b9475cad1656b2ac/README.md. This pinned documentation revision is not automatically the evaluated weight revision.Sourcesfacebookresearch/esm README.md · README.md; installation, model download and usage instructions |
| Code licence | MIT (upstream repository code at the cited revision; this does not establish every dependency or historical checkpoint licence).Sourcesfacebookresearch/esm LICENSE · LICENSE; complete licence text |
| Weights licence | The inspected model-access documentation does not explicitly identify terms for this exact evaluated checkpoint or fitted head; repository code terms are shown separately. · Not reported in inspected sourcesSourcesfacebookresearch/esm README.md · README.md; checkpoint/access documentation and licence scope |
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.
22 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Diagram caption Conceptual input–method–output guide. Check the procedure text and linked evaluation for fitted components, additional inputs and exact settings. Individual claims | Advancing the accuracy of clathrin protein prediction through multi-source protein language models Materials and methods/Overall framework of PLM-CLA (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1) Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram steps ["Protein amino-acid sequences","ESM-2 embedding + paper classifier","Clathrin versus non-clathrin classification"] Individual claims | Advancing the accuracy of clathrin protein prediction through multi-source protein language models Materials and methods/Overall framework of PLM-CLA (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1) Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram title Evaluated procedure (conceptual) Individual claims | Advancing the accuracy of clathrin protein prediction through multi-source protein language models Materials and methods/Overall framework of PLM-CLA (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1) Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Model type Protein sequence transformer; this record is the paper-specific evaluated configuration. Individual claims | facebookresearch/esm README.md README.md model description Version: 2b369911bb5b4b0dda914521b9475cad1656b2ac | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Architecture / procedure Pretrained protein embeddings are used as features for a downstream classifier. The paper also studies fused multi-model features and an LSTM; those combined PLM-CLA results must remain distinct from this ESM-2-only feature row. Individual claims | Advancing the accuracy of clathrin protein prediction through multi-source protein language models Materials and methods/Overall framework of PLM-CLA (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1) Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Weights licence The inspected model-access documentation does not explicitly identify terms for this exact evaluated checkpoint or fitted head; repository code terms are shown separately. Individual claims | facebookresearch/esm README.md README.md; checkpoint/access documentation and licence scope Version: 2b369911bb5b4b0dda914521b9475cad1656b2ac | unreported automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Biological inputs Protein amino-acid sequences Individual claims | Advancing the accuracy of clathrin protein prediction through multi-source protein language models Introduction (paragraph 2); Conclusion (paragraph 1) Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Outputs Clathrin versus non-clathrin classification Individual claims | Advancing the accuracy of clathrin protein prediction through multi-source protein language models Results and discussions/Performance evaluation of individual feature embeddings (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1) Version: journal full text in PMC | source checked automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Parameters An aggregate parameter total for this exact evaluated configuration is not established by the inspected sources. Individual claims | Advancing the accuracy of clathrin protein prediction through multi-source protein language models Materials and methods/Dataset construction; Materials and methods/Protein language model; Materials and methods/Feature selection method; Materials and methods/Overall framework of PLM-CLA; Materials and methods/Performance evaluation; Results and discussions/The effect of feature selection methods on the predictive performance; Results and discussions/Comparison of PLM-CLA with existing methods; inspected for aggregate parameter count (component sizes are not added without an exact configuration); README.md at pinned repository revision Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: journal full text in PMC | unreported automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Parameters An aggregate parameter total for this exact evaluated configuration is not established by the inspected sources. Individual claims | facebookresearch/esm README.md Materials and methods/Dataset construction; Materials and methods/Protein language model; Materials and methods/Feature selection method; Materials and methods/Overall framework of PLM-CLA; Materials and methods/Performance evaluation; Results and discussions/The effect of feature selection methods on the predictive performance; Results and discussions/Comparison of PLM-CLA with existing methods; inspected for aggregate parameter count (component sizes are not added without an exact configuration); README.md at pinned repository revision Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 2b369911bb5b4b0dda914521b9475cad1656b2ac | unreported automated source review · 2026-09-16 Audit detailsPrimary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
Release 2026-09-17-d277315f7d76 · Record review: needs review
3 source records and release history
- Advancing the accuracy of clathrin protein prediction through multi-source protein language models · Original source · journal full text in PMC
- facebookresearch/esm README.md · Original source · 2b369911bb5b4b0dda914521b9475cad1656b2ac
- facebookresearch/esm LICENSE · Original source · 2b369911bb5b4b0dda914521b9475cad1656b2ac
Technical metadata and extraction receipts
Stable ID: reported-model-e4710b1c3facf2
- areas
- proteins-complexes
- entity level
- method
- version
- not stated in table
- reported name
- ESM-2 embedding + paper classifier
- historical missing metadata
- checkpoint revision: not_reported_in_legacy_extract; training data: not_reported_in_legacy_extract; licence: not_reported_in_legacy_extract
- metadata review scope
- historical_missing_metadata preserves the original discovery state. Current descriptive evidence and missingness are recorded in profile.facts; numerical-result review is separate.
- legacy kinds
- model
- entity classification
- review date: 2026-09-17; rationale: This record identifies a composed analysis workflow with separately identifiable upstream models, representations or tools and a downstream prediction/scoring procedure. Results belong to that complete composition rather than to an upstream model alone.; source ids: clathrin-plm-2025; evidence-reported-base-esm-readme-md; source locator: Materials and methods/Overall framework of PLM-CLA (paragraph 1); Results and discussions/The effect of feature selection methods on the predictive performance (paragraph 1) | README.md model description | Materials and methods/Feature selection method (paragraph 1); Introduction (paragraph 3); ambiguities: This is the paper-specific pipeline identity; unspecified component checkpoints or implementation versions are not inferred from its name.