BiolitNEN focuses on normalizing the entities recognized in the previous NER phase, mapping them to standardized identifiers from established biomedical ontologies and databases. Overlapping or conflicting annotations are resolved based on priority rules and source reliability.
The normalization process covers the following entity types with their respective target resources:
| Type | Ontology |
|---|---|
| Chemical | MESH; CHEBI |
| Disease | MESH; OMIM |
| Cell type | Cell ontology; Cell taxonomy |
| Food | UMLS (T168) |
| Gene ontology | Gene ontology |
| Body part | UBERON |
| Treatment | UMLS (T060) |
| Diagnosis | UMLS (T061) |
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