Dataset Information

Development and Validation of a Deep Neural Network Model for Prediction of Postoperative In-hospital Mortality.

ABSTRACT: WHAT WE ALREADY KNOW ABOUT THIS TOPIC:WHAT THIS ARTICLE TELLS US THAT IS NEW: BACKGROUND:: The authors tested the hypothesis that deep neural networks trained on intraoperative features can predict postoperative in-hospital mortality. METHODS:The data used to train and validate the algorithm consists of 59,985 patients with 87 features extracted at the end of surgery. Feed-forward networks with a logistic output were trained using stochastic gradient descent with momentum. The deep neural networks were trained on 80% of the data, with 20% reserved for testing. The authors assessed improvement of the deep neural network by adding American Society of Anesthesiologists (ASA) Physical Status Classification and robustness of the deep neural network to a reduced feature set. The networks were then compared to ASA Physical Status, logistic regression, and other published clinical scores including the Surgical Apgar, Preoperative Score to Predict Postoperative Mortality, Risk Quantification Index, and the Risk Stratification Index. RESULTS:In-hospital mortality in the training and test sets were 0.81% and 0.73%. The deep neural network with a reduced feature set and ASA Physical Status classification had the highest area under the receiver operating characteristics curve, 0.91 (95% CI, 0.88 to 0.93). The highest logistic regression area under the curve was found with a reduced feature set and ASA Physical Status (0.90, 95% CI, 0.87 to 0.93). The Risk Stratification Index had the highest area under the receiver operating characteristics curve, at 0.97 (95% CI, 0.94 to 0.99). CONCLUSIONS:Deep neural networks can predict in-hospital mortality based on automatically extractable intraoperative data, but are not (yet) superior to existing methods.

SUBMITTER: Lee CK

PROVIDER: S-EPMC6148401 | biostudies-literature | 2018 Oct

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Development and Validation of a Deep Neural Network Model for Prediction of Postoperative In-hospital Mortality.

Lee Christine K CK Hofer Ira I Gabel Eilon E Baldi Pierre P Cannesson Maxime M

Anesthesiology 20181001 4

<h4>What we already know about this topic</h4>WHAT THIS ARTICLE TELLS US THAT IS NEW: BACKGROUND:: The authors tested the hypothesis that deep neural networks trained on intraoperative features can predict postoperative in-hospital mortality.<h4>Methods</h4>The data used to train and validate the algorithm consists of 59,985 patients with 87 features extracted at the end of surgery. Feed-forward networks with a logistic output were trained using stochastic gradient descent with momentum. The dee ...[more]

PMID: 29664888

Similar Datasets

Project description:While deep neural networks (DNNs) and other machine learning models often have higher accuracy than simpler models like logistic regression (LR), they are often considered to be "black box" models and this lack of interpretability and transparency is considered a challenge for clinical adoption. In healthcare, intelligible models not only help clinicians to understand the problem and create more targeted action plans, but also help to gain the clinicians' trust. One method of overcoming the limited interpretability of more complex models is to use Generalized Additive Models (GAMs). Standard GAMs simply model the target response as a sum of univariate models. Inspired by GAMs, the same idea can be applied to neural networks through an architecture referred to as Generalized Additive Models with Neural Networks (GAM-NNs). In this manuscript, we present the development and validation of a model applying the concept of GAM-NNs to allow for interpretability by visualizing the learned feature patterns related to risk of in-hospital mortality for patients undergoing surgery under general anesthesia. The data consists of 59,985 patients with a feature set of 46 features extracted at the end of surgery to which we added previously not included features: total anesthesia case time (1 feature); the time in minutes spent with mean arterial pressure (MAP) below 40, 45, 50, 55, 60, and 65 mmHg during surgery (6 features); and Healthcare Cost and Utilization Project (HCUP) Code Descriptions of the Primary current procedure terminology (CPT) codes (33 features) for a total of 86 features. All data were randomly split into 80% for training (n = 47,988) and 20% for testing (n = 11,997) prior to model development. Model performance was compared to a standard LR model using the same features as the GAM-NN. The data consisted of 59,985 surgical records, and the occurrence of in-hospital mortality was 0.81% in the training set and 0.72% in the testing set. The GAM-NN model with HCUP features had the highest area under the curve (AUC) 0.921 (0.895-0.95). Overall, both GAM-NN models had higher AUCs than LR models, however, had lower average precisions. The LR model without HCUP features had the highest average precision 0.217 (0.136-0.31). To assess the interpretability of the GAM-NNs, we then visualized the learned contributions of the GAM-NNs and compared against the learned contributions of the LRs for the models with HCUP features. Overall, we were able to demonstrate that our proposed generalized additive neural network (GAM-NN) architecture is able to (1) leverage a neural network's ability to learn nonlinear patterns in the data, which is more clinically intuitive, (2) be interpreted easily, making it more clinically useful, and (3) maintain model performance as compared to previously published DNNs.

Project description:BackgroundMachine learning (ML) achieves better predictions of postoperative mortality than previous prediction tools. Free-text descriptions of the preoperative diagnosis and the planned procedure are available preoperatively. Because reading these descriptions helps anesthesiologists evaluate the risk of the surgery, we hypothesized that deep learning (DL) models with unstructured text could improve postoperative mortality prediction. However, it is challenging to extract meaningful concept embeddings from this unstructured clinical text.ObjectiveThis study aims to develop a fusion DL model containing structured and unstructured features to predict the in-hospital 30-day postoperative mortality before surgery. ML models for predicting postoperative mortality using preoperative data with or without free clinical text were assessed.MethodsWe retrospectively collected preoperative anesthesia assessments, surgical information, and discharge summaries of patients undergoing general and neuraxial anesthesia from electronic health records (EHRs) from 2016 to 2020. We first compared the deep neural network (DNN) with other models using the same input features to demonstrate effectiveness. Then, we combined the DNN model with bidirectional encoder representations from transformers (BERT) to extract information from clinical texts. The effects of adding text information on the model performance were compared using the area under the receiver operating characteristic curve (AUROC) and the area under the precision-recall curve (AUPRC). Statistical significance was evaluated using P<.05.ResultsThe final cohort contained 121,313 patients who underwent surgeries. A total of 1562 (1.29%) patients died within 30 days of surgery. Our BERT-DNN model achieved the highest AUROC (0.964, 95% CI 0.961-0.967) and AUPRC (0.336, 95% CI 0.276-0.402). The AUROC of the BERT-DNN was significantly higher compared to logistic regression (AUROC=0.952, 95% CI 0.949-0.955) and the American Society of Anesthesiologist Physical Status (ASAPS AUROC=0.892, 95% CI 0.887-0.896) but not significantly higher compared to the DNN (AUROC=0.959, 95% CI 0.956-0.962) and the random forest (AUROC=0.961, 95% CI 0.958-0.964). The AUPRC of the BERT-DNN was significantly higher compared to the DNN (AUPRC=0.319, 95% CI 0.260-0.384), the random forest (AUPRC=0.296, 95% CI 0.239-0.360), logistic regression (AUPRC=0.276, 95% CI 0.220-0.339), and the ASAPS (AUPRC=0.149, 95% CI 0.107-0.203).ConclusionsOur BERT-DNN model has an AUPRC significantly higher compared to previously proposed models using no text and an AUROC significantly higher compared to logistic regression and the ASAPS. This technique helps identify patients with higher risk from the surgical description text in EHRs.

Project description:During the perioperative period patients often suffer complications, including acute kidney injury (AKI), reintubation, and mortality. In order to effectively prevent these complications, high-risk patients must be readily identified. However, most current risk scores are designed to predict a single postoperative complication and often lack specificity on the patient level. In other fields, machine learning (ML) has been shown to successfully create models to predict multiple end points using a single input feature set. We hypothesized that ML can be used to create models to predict postoperative mortality, AKI, reintubation, and a combined outcome using a single set of features available at the end of surgery. A set of 46 features available at the end of surgery, including drug dosing, blood loss, vital signs, and others were extracted. Additionally, six additional features accounting for total intraoperative hypotension were extracted and trialed for different models. A total of 59,981 surgical procedures met inclusion criteria and the deep neural networks (DNN) were trained on 80% of the data, with 20% reserved for testing. The network performances were then compared to ASA Physical Status. In addition to creating separate models for each outcome, a multitask learning model was trialed that used information on all outcomes to predict the likelihood of each outcome individually. The overall rate of the examined complications in this data set was 0.79% for mortality, 22.3% (of 21,676 patients with creatinine values) for AKI, and 1.1% for reintubation. Overall, there was significant overlap between the various model types for each outcome, with no one modeling technique consistently performing the best. However, the best DNN models did beat the ASA score for all outcomes other than mortality. The highest area under the receiver operating characteristic curve (AUC) models were 0.792 (0.775-0.808) for AKI, 0.879 (0.851-0.905) for reintubation, 0.907 (0.872-0.938) for mortality, and 0.874 (0.864-0.866) for any outcome. The ASA score alone achieved AUCs of 0.652 (0.636-0.669) for AKI, 0.787 (0.757-0.818) for reintubation, 0.839 (0.804-0.875) for mortality, and 0.76 (0.748-0.773) for any outcome. Overall, the DNN architecture was able to create models that outperformed the ASA physical status to predict all outcomes based on a single feature set, consisting of objective data available at the end of surgery. No one model architecture consistently performed the best.

Project description:BackgroundAutomatic text summarization (ATS) enables users to retrieve meaningful evidence from big data of biomedical repositories to make complex clinical decisions. Deep neural and recurrent networks outperform traditional machine-learning techniques in areas of natural language processing and computer vision; however, they are yet to be explored in the ATS domain, particularly for medical text summarization.ObjectiveTraditional approaches in ATS for biomedical text suffer from fundamental issues such as an inability to capture clinical context, quality of evidence, and purpose-driven selection of passages for the summary. We aimed to circumvent these limitations through achieving precise, succinct, and coherent information extraction from credible published biomedical resources, and to construct a simplified summary containing the most informative content that can offer a review particular to clinical needs.MethodsIn our proposed approach, we introduce a novel framework, termed Biomed-Summarizer, that provides quality-aware Patient/Problem, Intervention, Comparison, and Outcome (PICO)-based intelligent and context-enabled summarization of biomedical text. Biomed-Summarizer integrates the prognosis quality recognition model with a clinical context-aware model to locate text sequences in the body of a biomedical article for use in the final summary. First, we developed a deep neural network binary classifier for quality recognition to acquire scientifically sound studies and filter out others. Second, we developed a bidirectional long-short term memory recurrent neural network as a clinical context-aware classifier, which was trained on semantically enriched features generated using a word-embedding tokenizer for identification of meaningful sentences representing PICO text sequences. Third, we calculated the similarity between query and PICO text sequences using Jaccard similarity with semantic enrichments, where the semantic enrichments are obtained using medical ontologies. Last, we generated a representative summary from the high-scoring PICO sequences aggregated by study type, publication credibility, and freshness score.ResultsEvaluation of the prognosis quality recognition model using a large dataset of biomedical literature related to intracranial aneurysm showed an accuracy of 95.41% (2562/2686) in terms of recognizing quality articles. The clinical context-aware multiclass classifier outperformed the traditional machine-learning algorithms, including support vector machine, gradient boosted tree, linear regression, K-nearest neighbor, and naïve Bayes, by achieving 93% (16127/17341) accuracy for classifying five categories: aim, population, intervention, results, and outcome. The semantic similarity algorithm achieved a significant Pearson correlation coefficient of 0.61 (0-1 scale) on a well-known BIOSSES dataset (with 100 pair sentences) after semantic enrichment, representing an improvement of 8.9% over baseline Jaccard similarity. Finally, we found a highly positive correlation among the evaluations performed by three domain experts concerning different metrics, suggesting that the automated summarization is satisfactory.ConclusionsBy employing the proposed method Biomed-Summarizer, high accuracy in ATS was achieved, enabling seamless curation of research evidence from the biomedical literature to use for clinical decision-making.

Project description:BACKGROUND:Coding of underlying causes of death from death certificates is a process that is nowadays undertaken mostly by humans with potential assistance from expert systems, such as the Iris software. It is, consequently, an expensive process that can, in addition, suffer from geospatial discrepancies, thus severely impairing the comparability of death statistics at the international level. The recent advances in artificial intelligence, specifically the rise of deep learning methods, has enabled computers to make efficient decisions on a number of complex problems that were typically considered out of reach without human assistance; they require a considerable amount of data to learn from, which is typically their main limiting factor. However, the CépiDc (Centre d'épidémiologie sur les causes médicales de Décès) stores an exhaustive database of death certificates at the French national scale, amounting to several millions of training examples available for the machine learning practitioner. OBJECTIVE:This article investigates the application of deep neural network methods to coding underlying causes of death. METHODS:The investigated dataset was based on data contained from every French death certificate from 2000 to 2015, containing information such as the subject's age and gender, as well as the chain of events leading to his or her death, for a total of around 8 million observations. The task of automatically coding the subject's underlying cause of death was then formulated as a predictive modelling problem. A deep neural network-based model was then designed and fit to the dataset. Its error rate was then assessed on an exterior test dataset and compared to the current state-of-the-art (ie, the Iris software). Statistical significance of the proposed approach's superiority was assessed via bootstrap. RESULTS:The proposed approach resulted in a test accuracy of 97.8% (95% CI 97.7-97.9), which constitutes a significant improvement over the current state-of-the-art and its accuracy of 74.5% (95% CI 74.0-75.0) assessed on the same test example. Such an improvement opens up a whole field of new applications, from nosologist-level batch-automated coding to international and temporal harmonization of cause of death statistics. A typical example of such an application is demonstrated by recoding French overdose-related deaths from 2000 to 2010. CONCLUSIONS:This article shows that deep artificial neural networks are perfectly suited to the analysis of electronic health records and can learn a complex set of medical rules directly from voluminous datasets, without any explicit prior knowledge. Although not entirely free from mistakes, the derived algorithm constitutes a powerful decision-making tool that is able to handle structured medical data with an unprecedented performance. We strongly believe that the methods developed in this article are highly reusable in a variety of settings related to epidemiology, biostatistics, and the medical sciences in general.

Dataset Information

Development and Validation of a Deep Neural Network Model for Prediction of Postoperative In-hospital Mortality.

Publications

Development and Validation of a Deep Neural Network Model for Prediction of Postoperative In-hospital Mortality.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets