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Paper · 2001.05295 · 2020

Language Models Are An Effective Patient Representation Learning Technique For Electronic Health Record Data

arXiv · PDF · Open in the Atlas

Code that ran

We lifted 5 functions out of this paper's own repositories and ran 5 of them in a sandbox. "Ran" means the function executed on a synthesized input and returned a value. It is not a reproduction of the paper's results.

RepositoryRoleRan
som-shahlab/ehr_ml pwc_unofficial 5 of 5
FunctionStatusWhere it lives
get_subsequent_mask Ran som-shahlab/ehr_ml/ehr_ml/clmbr/rnn_model.py
code served (permissive licence) · get_code("ca925e93c3ecd2d6")
hash_rand_rang Ran som-shahlab/ehr_ml/ehr_ml/labeler.py
code served (permissive licence) · get_code("c1d613c7acd1cde0")
read_patient_split Ran som-shahlab/ehr_ml/ehr_ml/splits.py
code served (permissive licence) · get_code("47717bef92027d49")
read_split_directory Ran som-shahlab/ehr_ml/ehr_ml/splits.py
code served (permissive licence) · get_code("fa566175370a3365")
read_time_split Ran som-shahlab/ehr_ml/ehr_ml/splits.py
code served (permissive licence) · get_code("3324da1a794848b5")

Repositories linked to this paper

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Abstract

Widespread adoption of electronic health records (EHRs) has fueled the development of using machine learning to build prediction models for various clinical outcomes. This process is often constrained by having a relatively small number of patient records for training the model. We demonstrate that using patient representation schemes inspired from techniques in natural language processing can increase the accuracy of clinical prediction models by transferring information learned from the entire patient population to the task of training a specific model, where only a subset of the population is relevant. Such patient representation schemes enable a 3.5% mean improvement in AUROC on five prediction tasks compared to standard baselines, with the average improvement rising to 19% when only a small number of patient records are available for training the clinical prediction model.

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