arXiv subjects

Tom Edinburgh

Publications and source records attributed to Tom Edinburgh.

4 recordsLinked to original sources

arXiv2025

Clinical characteristics, complications and outcomes of critically ill patients with Dengue in Brazil, 2012-2024: a nationwide, multicentre cohort study

Background. Dengue outbreaks are a major public health issue, with Brazil reporting 71% of global cases in 2024. Purpose. This study aims to describe the profile of severe dengue patients admitted to Brazilian Intensive Care units (ICUs) (2012-2024), assess trends over time, describe new onset complications while in ICU and determine the risk factors at admission to develop complications during ICU stay. Methods. We performed a prospective study of dengue patients from 253 ICUs across 56 hospitals. We used descriptive statistics to describe the dengue ICU population, logistic regression to identify risk factors for complications during the ICU stay, and a machine learning framework to predict the risk of evolving to complications. Visualisations were generated using ISARIC VERTEX. Results. Of 11,047 admissions, 1,117 admissions (10.1%) evolved to complications, including non-invasive (437 admissions) and invasive ventilation (166), vasopressor (364), blood transfusion (353) and renal replacement therapy (103). Age>80 (OR: 3.10, 95% CI: 2.02-4.92), chronic kidney disease (OR: 2.94, 2.22-3.89), liver cirrhosis (OR: 3.65, 1.82-7.04), low platelets (<50,000 cells/mm3; OR: OR: 2.25, 1.89-2.68), and high leukocytes (>7,000 cells/mm3; OR: 2.47, 2.02-3.03) were significant risk factors for complications. A machine learning tool for predicting complications was proposed, showing accurate discrimination and calibration. Conclusion. We described a large cohort of dengue patients admitted to ICUs and identified key risk factors for severe dengue complications, such as advanced age, presence of comorbidities, higher level of leukocytes and lower level of platelets. The proposed prediction tool can be used for early identification and targeted interventions to improve outcomes in dengue-endemic regions.

stat.ML↗

arXiv2022

Bayesian model selection for multilevel models using integrated likelihoods

Multilevel linear models allow flexible statistical modelling of complex data with different levels of stratification. Identifying the most appropriate model from the large set of possible candidates is a challenging problem. In the Bayesian setting, the standard approach is a comparison of models using the model evidence or the Bayes factor. Explicit expressions for these quantities are available for the simplest linear models with unrealistic priors, but in most cases, direct computation is impossible. In practice, Markov Chain Monte Carlo approaches are widely used, such as sequential Monte Carlo, but it is not always clear how well such techniques perform. We present a method for estimation of the log model evidence, by an intermediate marginalisation over non-variance parameters. This reduces the dimensionality of any Monte Carlo sampling algorithm, which in turn yields more consistent estimates. The aim of this paper is to show how this framework fits together and works in practice, particularly on data with hierarchical structure. We illustrate this method on simulated multilevel data and on a popular dataset containing levels of radon in homes in the US state of Minnesota.

stat.ME↗

arXiv2021

Causality indices for bivariate time series data: a comparative review of performance

Inferring nonlinear and asymmetric causal relationships between multivariate longitudinal data is a challenging task with wide-ranging application areas including clinical medicine, mathematical biology, economics and environmental research. A number of methods for inferring causal relationships within complex dynamic and stochastic systems have been proposed but there is not a unified consistent definition of causality in this context. We evaluate the performance of ten prominent bivariate causality indices for time series data, across four simulated model systems that have different coupling schemes and characteristics. In further experiments, we show that these methods may not always be invariant to real-world relevant transformations (data availability, standardisation and scaling, rounding error, missing data and noisy data). We recommend transfer entropy and nonlinear Granger causality as likely to be particularly robust indices for estimating bivariate causal relationships in real-world applications. Finally, we provide flexible open-access Python code for computation of these methods and for the model simulations.

stat.ME↗

arXiv2019

DeepClean -- self-supervised artefact rejection for intensive care waveform data using deep generative learning

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.

stat.ML↗