Abstract
This work introduces BioLORD, a new pre-training strategy for producing meaningful representations for clinical sentences and biomedical concepts. State-of-the-art methodologies operate by maximizing the similarity in representation of names referring to the same concept, and preventing collapse through contrastive learning. However, because biomedical names are not always self-explanatory, it sometimes results in non-semantic representations. BioLORD overcomes this issue by grounding its concept representations using definitions, as well as short descriptions derived from a multi-relational knowledge graph consisting of biomedical ontologies. Thanks to this grounding, our model produces more semantic concept representations that match more closely the hierarchical structure of ontologies. BioLORD establishes a new state of the art for text similarity on both clinical sentences (MedSTS) and biomedical concepts (MayoSRS).- Anthology ID:
- 2022.findings-emnlp.104
- Volume:
- Findings of the Association for Computational Linguistics: EMNLP 2022
- Month:
- December
- Year:
- 2022
- Address:
- Abu Dhabi, United Arab Emirates
- Editors:
- Yoav Goldberg, Zornitsa Kozareva, Yue Zhang
- Venue:
- Findings
- SIG:
- Publisher:
- Association for Computational Linguistics
- Note:
- Pages:
- 1454–1465
- Language:
- URL:
- https://aclanthology.org/2022.findings-emnlp.104
- DOI:
- 10.18653/v1/2022.findings-emnlp.104
- Cite (ACL):
- François Remy, Kris Demuynck, and Thomas Demeester. 2022. BioLORD: Learning Ontological Representations from Definitions for Biomedical Concepts and their Textual Descriptions. In Findings of the Association for Computational Linguistics: EMNLP 2022, pages 1454–1465, Abu Dhabi, United Arab Emirates. Association for Computational Linguistics.
- Cite (Informal):
- BioLORD: Learning Ontological Representations from Definitions for Biomedical Concepts and their Textual Descriptions (Remy et al., Findings 2022)
- PDF:
- https://preview.aclanthology.org/corrections-2024-07/2022.findings-emnlp.104.pdf