readme: ---
  language:
  - en
  pipeline_tag: token-classification
  ---
  
  Named Entity Recognition (NER) model to recognize anatomical entities. 
  
  [PubMedBERT](https://huggingface.co/microsoft/BiomedNLP-PubMedBERT-base-uncased-abstract-fulltext) fine-tuned on the following datasets:
  - [MANTRA](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4986661/pdf/ocv037.pdf): entity type "ANAT"
  - [CellFinder](http://cellfinder.org/about/annotation/): entity type "Anatomical parts"
  - [CRAFT](https://github.com/UCDenver-ccp/CRAFT/tree/master/concept-annotation): entity type "UBERON"
  - [MLEE](http://nactem.ac.uk/MLEE/): entity types "Anatomical_system", "Organ", "Multi-tissue structure", "Tissue", "Immaterial_anatomical_entity"
  - [AnatEM](https://github.com/cambridgeltl/MTL-Bioinformatics-2016/tree/master/data/AnatEM-IOB)
  - [BioNLP13CG](): entity types "Multi-tissue structure", "Tissue", "Organ", "Immaterial anatomical entity", "Anatomical system"
  - [GREC](http://www.nactem.ac.uk/GREC/standoff.php): entity type "Tissue"