Clinical Outcome Prediction from Admission Notes using Self-Supervised Knowledge Integration

Betty van Aken, Jens-Michalis Papaioannou, Manuel Mayrdorfer, Klemens Budde, Felix Gers, Alexander Loeser

Document analysis including Text Categorization and Topic Models Long paper Paper

Zoom-1B: Apr 21, Zoom-1B: Apr 21 (08:00-09:00 UTC) [Join Zoom Meeting]
Gather-1A: Apr 21, Gather-1A: Apr 21 (13:00-15:00 UTC) [Join Gather Meeting]

You can open the pre-recorded video in separate windows.

Abstract: Outcome prediction from clinical text can prevent doctors from overlooking possible risks and help hospitals to plan capacities. We simulate patients at admission time, when decision support can be especially valuable, and contribute a novel *admission to discharge* task with four common outcome prediction targets: Diagnoses at discharge, procedures performed, in-hospital mortality and length-of-stay prediction. The ideal system should infer outcomes based on symptoms, pre-conditions and risk factors of a patient. We evaluate the effectiveness of language models to handle this scenario and propose *clinical outcome pre-training* to integrate knowledge about patient outcomes from multiple public sources. We further present a simple method to incorporate ICD code hierarchy into the models. We show that our approach improves performance on the outcome tasks against several baselines. A detailed analysis reveals further strengths of the model, including transferability, but also weaknesses such as handling of vital values and inconsistencies in the underlying data.
NOTE: Video may display a random order of authors. Correct author list is at the top of this page.

Connected Papers in EACL2021

Similar Papers

Boosting Low-Resource Biomedical QA via Entity-Aware Masking Strategies
Gabriele Pergola, Elena Kochkina, Lin Gui, Maria Liakata, Yulan He,
BERT Prescriptions to Avoid Unwanted Headaches: A Comparison of Transformer Architectures for Adverse Drug Event Detection
Beatrice Portelli, Edoardo Lenzi, Emmanuele Chersoni, Giuseppe Serra, Enrico Santus,
Towards More Fine-grained and Reliable NLP Performance Prediction
Zihuiwen Ye, Pengfei Liu, Jinlan Fu, Graham Neubig,