README.md

metadata

license: mit
task_categories:
  - token-classification
tags:
  - BioNER
  - Biomedical NER

AIObioEnts model files

NOTE: these models are only compatible with the AIObioEnts v0.0.1

This dataset contains the model files for AIObioEnts, trained using AIONER with 4 different pre-trained models:

• BiomedBERT-base pre-trained on abstracts from PubMed; the best-performing model reported in the original AIONER paper
• BiomedBERT-base pre-trained on both abstracts from PubMed and full-texts articles from PubMedCentral
• BioLinkBERT-base
• BioLinkBERT large

for the identification of core biomedical entities—gene, disease, cell line, chemical, species, variant— in textual data, in addition to the models fine-tuned with selected entites from the AnatEM corpus—cell component, tissue, organ, multi-tissue structure, cancer.