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Electronic health records (EHRs) recorded in hospital settings typically contain a wide range of numeric time series data that is characterized by high sparsity and irregular observations. Effective modelling for such data must exploit its…
Large language models (LLMs) have emerged as promising tools for assisting in medical tasks, yet processing Electronic Health Records (EHRs) presents unique challenges due to their longitudinal nature. While LLMs' capabilities to perform…
Electronic Health Records (EHRs) provide crucial information for clinical decision-making. However, their high-dimensionality, heterogeneity, and sparsity make clinical prediction challenging. Large Language Models (LLMs) allowed progress…
Foundation models hold significant promise in healthcare, given their capacity to extract meaningful representations independent of downstream tasks. This property has enabled state-of-the-art performance across several clinical…
We propose a new class of waveform foundation models that departs from conventional sequence based representations by modeling physiological time series as realizations of latent event processes. Rather than treating signals as collections…
Objective: To transform heterogeneous clinical data from electronic health records into clinically meaningful constructed features using data driven method that rely, in part, on temporal relations among data. Materials and Methods: The…
Electronic health record (EHR) data is sparse and irregular as it is recorded at irregular time intervals, and different clinical variables are measured at each observation point. In this work, we propose a multi-view features integration…
Clinicians spend a significant amount of time inputting free-form textual notes into Electronic Health Records (EHR) systems. Much of this documentation work is seen as a burden, reducing time spent with patients and contributing to…
This paper introduces an innovative Electronic Health Record (EHR) foundation model that integrates Polygenic Risk Scores (PRS) as a foundational data modality, moving beyond traditional EHR-only approaches to build more holistic health…
Lab tests are fundamental for diagnosing diseases and monitoring patient conditions. However, frequent testing can be burdensome for patients, and test results may not always be immediately available. To address these challenges, we propose…
Distributed representations of medical concepts have been used to support downstream clinical tasks recently. Electronic Health Records (EHR) capture different aspects of patients' hospital encounters and serve as a rich source for…
While the general machine learning (ML) community has benefited from public datasets, tasks, and models, the progress of ML in healthcare has been hampered by a lack of such shared assets. The success of foundation models creates new…
The temporal complexity of electronic health record (EHR) data presents significant challenges for predicting clinical outcomes using machine learning. This paper proposes ChronoFormer, an innovative transformer based architecture…
Foundation models (FMs) trained on electronic health records (EHRs) have shown strong performance on a range of clinical prediction tasks. However, adapting these models to local health systems remains challenging due to limited data…
Electronic Health Records (EHR) can be represented as temporal sequences that record the events (medical visits) from patients. Neural temporal point process (NTPP) has achieved great success in modeling event sequences that occur in…
Sepsis is a life-threatening condition that seriously endangers millions of people over the world. Hopefully, with the widespread availability of electronic health records (EHR), predictive models that can effectively deal with clinical…
Deep learning-based predictive models, leveraging Electronic Health Records (EHR), are receiving increasing attention in healthcare. An effective representation of a patient's EHR should hierarchically encompass both the temporal…
Biomedical studies that use electronic health records (EHR) data for inference are often subject to bias due to measurement error. The measurement error present in EHR data is typically complex, consisting of errors of unknown functional…
Electronic medical records (EMR) contain longitudinal information about patients that can be used to analyze outcomes. Typically, studies on EMR data have worked with established variables that have already been acknowledged to be…
The objective of this work is to develop an Electronic Medical Record (EMR) data processing tool that confers clinical context to Machine Learning (ML) algorithms for error handling, bias mitigation and interpretability. We present…