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Register a new userPredicting sepsis in multi-site, multi-national intensive care cohorts using deep learning
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Added by
Bastian Rieck
Publication date
2021
fields
Informatics Engineering
and research's language is
English
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Despite decades of clinical research, sepsis remains a global public health crisis with high mortality, and morbidity. Currently, when sepsis is detected and the underlying pathogen is identified, organ damage may have already progressed to irreversible stages. Effective sepsis management is therefore highly time-sensitive. By systematically analysing trends in the plethora of clinical data available in the intensive care unit (ICU), an early prediction of sepsis could lead to earlier pathogen identification, resistance testing, and effective antibiotic and supportive treatment, and thereby become a life-saving measure. Here, we developed and validated a machine learning (ML) system for the prediction of sepsis in the ICU. Our analysis represents the largest multi-national, multi-centre in-ICU study for sepsis prediction using ML to date. Our dataset contains $156,309$ unique ICU admissions, which represent a refined and harmonised subset of five large ICU databases originating from three countries. Using the international consensus definition Sepsis-3, we derived hourly-resolved sepsis label annotations, amounting to $26,734$ ($17.1%$) septic stays. We compared our approach, a deep self-attention model, to several clinical baselines as well as ML baselines and performed an extensive internal and external validation within and across databases. On average, our model was able to predict sepsis with an AUROC of $0.847 pm 0.050$ (internal out-of sample validation) and $0.761 pm 0.052$ (external validation). For a harmonised prevalence of $17%$, at $80%$ recall our model detects septic patients with $39%$ precision 3.7 hours in advance.
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Deep learning models have achieved expert-level performance in healthcare with an exclusive focus on training accurate models. However, in many clinical environments such as intensive care unit (ICU), real-time model serving is equally if not more important than accuracy, because in ICU patient care is simultaneously more urgent and more expensive. Clinical decisions and their timeliness, therefore, directly affect both the patient outcome and the cost of care. To make timely decisions, we argue the underlying serving system must be latency-aware. To compound the challenge, health analytic applications often require a combination of models instead of a single model, to better specialize individual models for different targets, multi-modal data, different prediction windows, and potentially personalized predictions. To address these challenges, we propose HOLMES-an online model ensemble serving framework for healthcare applications. HOLMES dynamically identifies the best performing set of models to ensemble for highest accuracy, while also satisfying sub-second latency constraints on end-to-end prediction. We demonstrate that HOLMES is able to navigate the accuracy/latency tradeoff efficiently, compose the ensemble, and serve the model ensemble pipeline, scaling to simultaneously streaming data from 100 patients, each producing waveform data at 250~Hz. HOLMES outperforms the conventional offline batch-processed inference for the same clinical task in terms of accuracy and latency (by order of magnitude). HOLMES is tested on risk prediction task on pediatric cardio ICU data with above 95% prediction accuracy and sub-second latency on 64-bed simulation.
In this document, we explore in more detail our published work (Komorowski, Celi, Badawi, Gordon, & Faisal, 2018) for the benefit of the AI in Healthcare research community. In the above paper, we developed the AI Clinician system, which demonstrated how reinforcement learning could be used to make useful recommendations towards optimal treatment decisions from intensive care data. Since publication a number of authors have reviewed our work (e.g. Abbasi, 2018; Bos, Azoulay, & Martin-Loeches, 2019; Saria, 2018). Given the difference of our framework to previous work, the fact that we are bridging two very different academic communities (intensive care and machine learning) and that our work has impact on a number of other areas with more traditional computer-based approaches (biosignal processing and control, biomedical engineering), we are providing here additional details on our recent publication.
With the development of the Internet of Things(IoT) and Artificial Intelligence(AI) technologies, human activity recognition has enabled various applications, such as smart homes and assisted living. In this paper, we target a new healthcare application of human activity recognition, early mobility recognition for Intensive Care Unit(ICU) patients. Early mobility is essential for ICU patients who suffer from long-time immobilization. Our system includes accelerometer-based data collection from ICU patients and an AI model to recognize patients early mobility. To improve the model accuracy and stability, we identify features that are insensitive to sensor orientations and propose a segment voting process that leverages a majority voting strategy to recognize each segments activity. Our results show that our system improves model accuracy from 77.78% to 81.86% and reduces the model instability (standard deviation) from 16.69% to 6.92%, compared to the same AI model without our feature engineering and segment voting process.
Waveform physiological data is important in the treatment of critically ill patients in the intensive care unit. Such recordings are susceptible to artefacts, which must be removed before the data can be re-used for alerting or reprocessed for other clinical or research purposes. Accurate removal of artefacts reduces bias and uncertainty in clinical assessment, as well as the false positive rate of intensive care unit alarms, and is therefore a key component in providing optimal clinical care. In this work, we present DeepClean; a prototype self-supervised artefact detection system using a convolutional variational autoencoder deep neural network that avoids costly and painstaking manual annotation, requiring only easily-obtained good data for training. For a test case with invasive arterial blood pressure, we demonstrate that our algorithm can detect the presence of an artefact within a 10-second sample of data with sensitivity and specificity around 90%. Furthermore, DeepClean was able to identify regions of artefact within such samples with high accuracy and we show that it significantly outperforms a baseline principle component analysis approach in both signal reconstruction and artefact detection. DeepClean learns a generative model and therefore may also be used for imputation of missing data.
Conventional simulations on multi-exit indoor evacuation focus primarily on how to determine a reasonable exit based on numerous factors in a changing environment. Results commonly include some congested and other under-utilized exits, especially with massive pedestrians. We propose a multi-exit evacuation simulation based on Deep Reinforcement Learning (DRL), referred to as the MultiExit-DRL, which involves in a Deep Neural Network (DNN) framework to facilitate state-to-action mapping. The DNN framework applies Rainbow Deep Q-Network (DQN), a DRL algorithm that integrates several advanced DQN methods, to improve data utilization and algorithm stability, and further divides the action space into eight isometric directions for possible pedestrian choices. We compare MultiExit-DRL with two conventional multi-exit evacuation simulation models in three separate scenarios: 1) varying pedestrian distribution ratios, 2) varying exit width ratios, and 3) varying open schedules for an exit. The results show that MultiExit-DRL presents great learning efficiency while reducing the total number of evacuation frames in all designed experiments. In addition, the integration of DRL allows pedestrians to explore other potential exits and helps determine optimal directions, leading to the high efficiency of exit utilization.
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