KRR-Oxford / OAEI-Bio-ML

Dataset pointer and evaluation protocol for the Bio-ML Track of the OAEI.

OAEI Bio-ML

This repository provides dataset pointer and evaluation scripts for the Bio-ML Track of the OAEI.

Example code of OM evaluation is available at bertmap_scripts/bertmap_eval.ipynb.

Links

• Official OAEI Page: https://www.cs.ox.ac.uk/isg/projects/ConCur/oaei/index.html
• Detailed Documentation: https://krr-oxford.github.io/DeepOnto/bio-ml/
• Resource Paper: https://arxiv.org/abs/2205.03447
• Dataset Download:
  • OAEI 2023: https://doi.org/10.5281/zenodo.8193375
  • OAEI 2022: https://doi.org/10.5281/zenodo.6946466

Results will be published on the OAEI webpage.

Citation

@inproceedings{he2022machine,
  title={Machine Learning-Friendly Biomedical Datasets for Equivalence and Subsumption Ontology Matching},
  author={He, Yuan and Chen, Jiaoyan and Dong, Hang and Jim{\'e}nez-Ruiz, Ernesto and Hadian, Ali and Horrocks, Ian},
  booktitle={The Semantic Web--ISWC 2022: 21st International Semantic Web Conference, Virtual Event, October 23--27, 2022, Proceedings},
  pages={575--591},
  year={2022},
  organization={Springer}
}