Normalizing Clinical Document Titles to LOINC Document Ontology: an Initial Study.

The normalization of clinical documents is essential for health information management with the enormous amount of clinical documentation generated each year. The LOINC Document Ontology (DO) is a universal clinical document standard in a hierarchical structure. The objective of this study is to investigate the feasibility and generalizability of LOINC DO by mapping from clinical note titles across five institutions to five DO axes. We first developed an annotation framework based on the definition of LOINC DO axes and manually mapped 4,000 titles. Then we introduced a pre-trained deep learning model named Bidirectional Encoder Representations from Transformers (BERT) to enable automatic mapping from titles to LOINC DO axes. The results showed that the BERT-based automatic mapping achieved improved performance compared with the baseline model. By analyzing both manual annotations and predicted results, ambiguities in LOINC DO axes definition were discussed.

AMIA ... Annual Symposium proceedings. AMIA Symposium. 2020 ;2020():1441-1450.

ISSN 1942-597X

Authors: Xu Zuo, Jianfu Li, Bo Zhao, Yujia Zhou, Xiao Dong, Jon Duke, Karthik Natarajan, George Hripcsak, Nigam Shah, Juan M Banda, Ruth Reeves, Timothy Miller, Hua Xu

©2020 AMIA - All rights reserved.

PMID 33936520

PubMed BibTeX

Document Ontology