Publication details

Unsupervised extraction, classification and visualization of clinical note segments using the MIMIC-III dataset



Year of publication 2023
Type Article in Proceedings
Conference Proceedings of IEEE International Conference on Bioinformatics and Biomedicine (BIBM)
MU Faculty or unit

Faculty of Informatics

Keywords NLP; EHR; Clinical Notes; Information Extraction; Text Classification
Description This paper presents a text-mining approach to extracting and organizing segments from unstructured clinical notes in an unsupervised way. Our work is motivated by the real challenge of poor semantic integration between clinical notes produced by different doctors, departments, or hospitals. This can lead to clinicians overlooking important information, especially for patients with long and varied medical histories. This work extends a previous approach developed for Czech breast cancer patients and validates it on the publicly accessible MIMIC-III English dataset, demonstrating its universal and language-independent applicability. Our work is a stepping stone to a broad array of downstream tasks, such as summarizing or integrating patient records, extracting structured information, or computing patient embeddings. Additionally, the paper presents a clustering analysis of the latent space of note segment types, using hierarchical clustering and an interactive treemap visualization. The presented results demonstrate that this approach generalizes well for MIMIC and English.
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