The abstracts contained in the corpus are from PubMed, a database of the U.S. National Library of Medicine (NLM). Please see the NLM page on copyright information regarding the copyright of the abstracts: http://www.nlm.nih.gov/databases/download.html
The full text extracts contained in the corpus are from articles in the Open Access Subset of the PubMed Central (PMC) database of the NLM. These articles are made available under a Creative Commons or similar license. Please see the REFERENCES file in this distribution for references to the articles and the PMC version of each article for the specific license terms.
This dataset consists of abstracts and full-text biomedical papers. It was downloaded in November 2017 from:
http://www.nactem.ac.uk/anatomy/
Specifically:
http://www.nactem.ac.uk/anatomy/data/AnEM-1.0.4.tar.gz
train: 71697 entries | test: 45939 entries
Tomoko Ohta, Sampo Pyysalo, Jun'ichi Tsujii and Sophia Ananiadou (2012). Open-domain Anatomical Entity Mention Detection. In Proceedings of ACL 2012 Workshop on Detecting Structure in Scholarly Discourse (DSSD), pp. 27-36.
For more information, see:
http://www.nactem.ac.uk/anatomy/
IOB2
| Column | Description |
|---|---|
| id | a string feature. |
| start | begin character position |
| end chunk_tags | end character position |
| ner_tags | a list of classification labels |
| Labels |
|---|
| Anatomical_system |
| Cell |
| Cellular_component |
| Developing_anatomical_structure |
| Immaterial_anatomical_entity |
| Multi-tissue_structure |
| Organ |
| Organism_subdivision |
| Organism_substance |
| Pathological_formation |
| Tissue |
Ventricular 0 11 B-Multi-tissue_structure fibrillation 12 24 O