Searle, Thomas;
Ibrahim, Zina;
Teo, James;
Dobson, Richard JB;
(2023)
Discharge summary hospital course summarisation of in patient Electronic Health Record text with clinical concept guided deep pre-trained Transformer models.
Journal of Biomedical Informatics
, 141
, Article 104358. 10.1016/j.jbi.2023.104358.
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Abstract
Brief Hospital Course (BHC) summaries are succinct summaries of an entire hospital encounter, embedded within discharge summaries, written by senior clinicians responsible for the overall care of a patient. Methods to automatically produce summaries from inpatient documentation would be invaluable in reducing clinician manual burden of summarising documents under high time-pressure to admit and discharge patients. Automatically producing these summaries from the inpatient course, is a complex, multi-document summarisation task, as source notes are written from various perspectives (e.g. nursing, doctor, radiology), during the course of the hospitalisation. We demonstrate a range of methods for BHC summarisation demonstrating the performance of deep learning summarisation models across extractive and abstractive summarisation scenarios. We also test a novel ensemble extractive and abstractive summarisation model that incorporates a medical concept ontology (SNOMED) as a clinical guidance signal and shows superior performance in 2 real-world clinical data sets.
| Type: | Article |
|---|---|
| Title: | Discharge summary hospital course summarisation of in patient Electronic Health Record text with clinical concept guided deep pre-trained Transformer models |
| Location: | United States |
| DOI: | 10.1016/j.jbi.2023.104358 |
| Publisher version: | https://doi.org/10.1016/j.jbi.2023.104358 |
| Language: | English |
| Additional information: | This version is the author accepted manuscript. For information on re-use, please refer to the publisher’s terms and conditions. |
| Keywords: | Clinical natural language processing, Clinical text summarisation, Pre-trained, deep learning, fine-tuned models for clinical summarisation |
| UCL classification: | UCL UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Population Health Sciences > Institute of Health Informatics UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Population Health Sciences > Institute of Health Informatics > Clinical Epidemiology |
| URI: | https://discovery.ucl.ac.uk/id/eprint/10169753 |
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