Source

Enhanced prediction of protein functional identity through the integration of sequence and structural features

2024 · PMC11609699.1 · Peer-reviewed

DOI: 10.1016/j.csbj.2024.11.028 Original source

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2 configurations
1 task
1 dataset
2 evaluations
16 results
3 evidence claims

Results

Values as the source printed them. Compare results only under compatible protocols, datasets and metrics.

Model or configuration	Metric	Value	Dataset	Evaluation
ESM2	Accuracy	71.33 percent	FUJISAN test sub-dataset	ESM2: Enzyme functional identity prediction
ESM2	AUPRC	0.8147 unitless	FUJISAN test sub-dataset	ESM2: Enzyme functional identity prediction
ESM2	AUROC	0.7991 unitless	FUJISAN test sub-dataset	ESM2: Enzyme functional identity prediction
ESM2	F1	0.7345 unitless	FUJISAN test sub-dataset	ESM2: Enzyme functional identity prediction
ESM2	False positive rate	36.67 percent	FUJISAN test sub-dataset	ESM2: Enzyme functional identity prediction
ESM2	MCC	0.4321 unitless	FUJISAN test sub-dataset	ESM2: Enzyme functional identity prediction
ESM2	Precision	68.39 percent	FUJISAN test sub-dataset	ESM2: Enzyme functional identity prediction
ESM2	Recall	79.33 percent	FUJISAN test sub-dataset	ESM2: Enzyme functional identity prediction
FUJISAN	Accuracy	87.05 percent	FUJISAN test sub-dataset	FUJISAN: Enzyme functional identity prediction
FUJISAN	AUPRC	0.9413 unitless	FUJISAN test sub-dataset	FUJISAN: Enzyme functional identity prediction
FUJISAN	AUROC	0.9427 unitless	FUJISAN test sub-dataset	FUJISAN: Enzyme functional identity prediction
FUJISAN	F1	0.8728 unitless	FUJISAN test sub-dataset	FUJISAN: Enzyme functional identity prediction
FUJISAN	False positive rate	13.35 percent	FUJISAN test sub-dataset	FUJISAN: Enzyme functional identity prediction
FUJISAN	MCC	0.7421 unitless	FUJISAN test sub-dataset	FUJISAN: Enzyme functional identity prediction
FUJISAN	Precision	87.24 percent	FUJISAN test sub-dataset	FUJISAN: Enzyme functional identity prediction
FUJISAN	Recall	87.05 percent	FUJISAN test sub-dataset	FUJISAN: Enzyme functional identity prediction

Claims

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ESM2: uses model ESM-2: Uses model ESM-2 (Section Prediction with ESM-2; esm2_t33_650M_UR50D embeddings followed by cosine similarity)
Reported AUROC for ESM2: Printed value 0.7991 (Table 1, ESM2 row, AUROC column)
Reported AUROC for FUJISAN: Printed value 0.9427 (Table 1, FUJISAN row, AUROC column)

Models, benchmarks and other records

Configurations (2)

Tasks (1)

Enzyme functional identity prediction

Datasets (1)

FUJISAN test sub-dataset

Evaluations (2)

Evidence

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Evidence table

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18 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-11-02-a7f03c9e55a5
Property and statement	Original source and location	Review and provenance
Artifact retrieved at 2026-09-16T10:33:35.728Z Source metadata	Enhanced prediction of protein functional identity through the integration of sequence and structural features Original source ↗ No field-specific location recorded Version: PMC11609699.1 Retrieved: 2026-09-16T10:33:35.728Z	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_retrieved_at` Source artifact SHA-256: `db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Artifact SHA-256 db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f Source metadata	Enhanced prediction of protein functional identity through the integration of sequence and structural features Original source ↗ No field-specific location recorded Version: PMC11609699.1 Retrieved: 2026-09-16T10:33:35.728Z	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_sha256` Source artifact SHA-256: `db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Artifact url https://www.ebi.ac.uk/europepmc/webservices/rest/PMC11609699/fullTextXML Source metadata	Enhanced prediction of protein functional identity through the integration of sequence and structural features Original source ↗ No field-specific location recorded Version: PMC11609699.1 Retrieved: 2026-09-16T10:33:35.728Z	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_url` Source artifact SHA-256: `db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Doi 10.1016/j.csbj.2024.11.028 Source metadata	Enhanced prediction of protein functional identity through the integration of sequence and structural features Original source ↗ No field-specific location recorded Version: PMC11609699.1 Retrieved: 2026-09-16T10:33:35.728Z	catalogued No individual claim review recorded Audit details Field: `attributes.doi` Source artifact SHA-256: `db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Missing metadata: licence: reason unextracted Source metadata	Enhanced prediction of protein functional identity through the integration of sequence and structural features Original source ↗ No field-specific location recorded Version: PMC11609699.1 Retrieved: 2026-09-16T10:33:35.728Z	catalogued No individual claim review recorded Audit details Field: `attributes.missing_metadata.licence.reason` Source artifact SHA-256: `db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Publication status peer_reviewed Source metadata	Enhanced prediction of protein functional identity through the integration of sequence and structural features Original source ↗ No field-specific location recorded Version: PMC11609699.1 Retrieved: 2026-09-16T10:33:35.728Z	catalogued No individual claim review recorded Audit details Field: `attributes.publication_status` Source artifact SHA-256: `db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Retrieved at 2026-09-15T23:25:00Z Source metadata	Enhanced prediction of protein functional identity through the integration of sequence and structural features Original source ↗ No field-specific location recorded Version: PMC11609699.1 Retrieved: 2026-09-16T10:33:35.728Z	catalogued No individual claim review recorded Audit details Field: `attributes.retrieved_at` Source artifact SHA-256: `db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Scope decision included Source metadata	Enhanced prediction of protein functional identity through the integration of sequence and structural features Original source ↗ No field-specific location recorded Version: PMC11609699.1 Retrieved: 2026-09-16T10:33:35.728Z	catalogued No individual claim review recorded Audit details Field: `attributes.scope_decision` Source artifact SHA-256: `db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Url https://pmc.ncbi.nlm.nih.gov/articles/PMC11609699/ Source metadata	Enhanced prediction of protein functional identity through the integration of sequence and structural features Original source ↗ No field-specific location recorded Version: PMC11609699.1 Retrieved: 2026-09-16T10:33:35.728Z	catalogued No individual claim review recorded Audit details Field: `attributes.url` Source artifact SHA-256: `db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Version PMC11609699.1 Source metadata	Enhanced prediction of protein functional identity through the integration of sequence and structural features Original source ↗ No field-specific location recorded Version: PMC11609699.1 Retrieved: 2026-09-16T10:33:35.728Z	catalogued No individual claim review recorded Audit details Field: `attributes.version` Source artifact SHA-256: `db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f` 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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Technical metadata and extraction receipts

Stable ID: fujisan-2024

areas: proteins-complexes
url: https://pmc.ncbi.nlm.nih.gov/articles/PMC11609699/
version: PMC11609699.1
retrieved at: 2026-09-15T23:25:00Z
doi: 10.1016/j.csbj.2024.11.028
publication status: peer_reviewed
year: 2024
artifact sha256: db33e0542005ffae00cd644dfe697185b94c8823d5aee2768620a6db0c48e56f
artifact url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC11609699/fullTextXML
artifact retrieved at: 2026-09-16T10:33:35.728Z
scope decision: included
missing metadata: licence: reason: unextracted

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