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Advancing the accuracy of clathrin protein prediction through multi-source protein language models

2025 · journal full text in PMC · Peer-reviewed

DOI: 10.1038/s41598-025-08510-4 Original source

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1 pipeline
1 task
1 dataset
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3 evidence claims

Results

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Model or configuration	Metric	Value	Dataset	Evaluation
ESM-2 embedding + paper classifier	Accuracy	0.916 fraction	CLA-IND0.6	ESM-2 embedding + paper classifier: clathrin protein classification

Claims

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ESM-2 embedding + paper classifier: description: Description ESM-2-only feature configuration of a clathrin-identification study: 1,280-dimensional ESM-2 embeddings feed an LSTM classifier, separately from the fused multi-model PLM-CLA predictor. (Reviewed profile (2026-09-16): summary at Materials and methods/Feature selection method (paragraph 1); Introduction (paragraph 3); architecture fact at 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); description text also read at Results and discussions/Performance evaluation of individual feature embeddings (embedding dimensions and per-PLM LSTM models))
ESM-2 embedding + paper classifier: uses model ESM-2: Uses model ESM-2 (Methods: ESM2_t33_650M_UR50D feature extraction; feature-specific LSTM classifiers)
Reported accuracy for ESM-2 embedding + paper classifier: Printed value 0.916 (Table 2, Independent test / ESM-2 row, ACC column)

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Claims, original sources and review scope · Release 2026-11-02-a7f03c9e55a5
Property and statement	Original source and location	Review and provenance
Artifact retrieved at 2026-09-16T10:38:57.558194+00:00 Source metadata	Advancing the accuracy of clathrin protein prediction through multi-source protein language models Original source ↗ No field-specific location recorded Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558194+00:00	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_retrieved_at` Source artifact SHA-256: `2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Artifact SHA-256 2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e Source metadata	Advancing the accuracy of clathrin protein prediction through multi-source protein language models Original source ↗ No field-specific location recorded Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558194+00:00	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_sha256` Source artifact SHA-256: `2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Artifact url https://www.ebi.ac.uk/europepmc/webservices/rest/PMC12238356/fullTextXML Source metadata	Advancing the accuracy of clathrin protein prediction through multi-source protein language models Original source ↗ No field-specific location recorded Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558194+00:00	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_url` Source artifact SHA-256: `2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Doi 10.1038/s41598-025-08510-4 Source metadata	Advancing the accuracy of clathrin protein prediction through multi-source protein language models Original source ↗ No field-specific location recorded Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558194+00:00	catalogued No individual claim review recorded Audit details Field: `attributes.doi` Source artifact SHA-256: `2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Missing metadata: licence: reason unextracted Source metadata	Advancing the accuracy of clathrin protein prediction through multi-source protein language models Original source ↗ No field-specific location recorded Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558194+00:00	catalogued No individual claim review recorded Audit details Field: `attributes.missing_metadata.licence.reason` Source artifact SHA-256: `2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Publication status peer_reviewed Source metadata	Advancing the accuracy of clathrin protein prediction through multi-source protein language models Original source ↗ No field-specific location recorded Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558194+00:00	catalogued No individual claim review recorded Audit details Field: `attributes.publication_status` Source artifact SHA-256: `2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Retrieved at 2026-09-15T23:33:26Z Source metadata	Advancing the accuracy of clathrin protein prediction through multi-source protein language models Original source ↗ No field-specific location recorded Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558194+00:00	catalogued No individual claim review recorded Audit details Field: `attributes.retrieved_at` Source artifact SHA-256: `2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Scope decision included Source metadata	Advancing the accuracy of clathrin protein prediction through multi-source protein language models Original source ↗ No field-specific location recorded Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558194+00:00	catalogued No individual claim review recorded Audit details Field: `attributes.scope_decision` Source artifact SHA-256: `2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Url https://pmc.ncbi.nlm.nih.gov/articles/PMC12238356/ Source metadata	Advancing the accuracy of clathrin protein prediction through multi-source protein language models Original source ↗ No field-specific location recorded Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558194+00:00	catalogued No individual claim review recorded Audit details Field: `attributes.url` Source artifact SHA-256: `2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Version journal full text in PMC Source metadata	Advancing the accuracy of clathrin protein prediction through multi-source protein language models Original source ↗ No field-specific location recorded Version: journal full text in PMC Retrieved: 2026-09-16T10:38:57.558194+00:00	catalogued No individual claim review recorded Audit details Field: `attributes.version` Source artifact SHA-256: `2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact

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Release 2026-11-02-a7f03c9e55a5 · Record review: discovered

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Stable ID: clathrin-plm-2025

areas: proteins-complexes
url: https://pmc.ncbi.nlm.nih.gov/articles/PMC12238356/
version: journal full text in PMC
retrieved at: 2026-09-15T23:33:26Z
doi: 10.1038/s41598-025-08510-4
publication status: peer_reviewed
year: 2025
artifact sha256: 2edc86b25707c1b737d26117093ce8d856e79cc5d0b335f27c1c341f887f1c7e
artifact url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC12238356/fullTextXML
artifact retrieved at: 2026-09-16T10:38:57.558194+00:00
scope decision: included
missing metadata: licence: reason: unextracted

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Evidence table

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