Synergy of Physics-based Reasoning and Machine Learning in Biomedical Applications: Towards Unlimited Deep Learning with Limited Data

Technological advancements enable collecting vast data, i.e., Big Data, in science and industry including biomedical field. Increased computational power allows expedient analysis of collected data using statistical and machine-learning approaches. Historical data incompleteness problem and curse of dimensionality diminish practical value of pure data-driven approaches, especially in biomedicine. Advancements in deep learning (DL) frameworks based on deep neural networks (DNN) improved accuracy in image recognition, natural language processing, and other applications yet severe data limitations and/or absence of transfer-learning-relevant problems drastically reduce advantages of DNN-based DL. Our earlier works demonstrate that hierarchical data representation can be alternatively implemented without NN, using boosting-like algorithms for utilization of existing domain knowledge, tolerating significant data incompleteness, and boosting accuracy of low-complexity models within the classifier ensemble, as illustrated in physiological-data analysis. Beyond obvious use in initial-factor selection, existing simplified models are effectively employed for generation of realistic synthetic data for later DNN pre-training. We review existing machine learning approaches, focusing on limitations caused by training-data incompleteness. We outline our hybrid framework that leverages existing domain-expert models/knowledge, boosting-like model combination, DNN-based DL and other machine learning algorithms for drastic reduction of training-data requirements. Applying this framework is illustrated in context of analyzing physiological data

Detection of abnormalities in ECG using Deep Learning

A significant part of healthcare is focused on the information that the physiological signals offer about the health state of an individual. The Electrocardiogram (ECG) cyclic behaviour gives insight on a subject’s emotional, behavioral and cardiovascular state. These signals often present abnormal events that affects their analysis. Two examples are the noise, that occurs during the acquisition, and symptomatic patterns, that are produced by pathologies. This thesis proposes a Deep Neural Networks framework that learns the normal behaviour of an ECG while detecting abnormal events, tested in two different settings: detection of different types of noise, and; symptomatic events caused by different pathologies. Two algorithms were developed for noise detection, using an autoencoder and Convolutional Neural Networks (CNN), reaching accuracies of 98,18% for the binary class model and 70,74% for the multi-class model, which is able to discern between base wandering, muscle artifact and electrode motion noise. As for the arrhythmia detection algorithm was developed using an autoencoder and Recurrent Neural Networks with Gated Recurrent Units (GRU) architecture. With an accuracy of 56,85% and an average sensitivity of 61.13%, compared to an average sensitivity of 75.22% for a 12 class model developed by Hannun et al. The model detects 7 classes: normal sinus rhythm, paced rhythm, ventricular bigeminy, sinus bradycardia, atrial fibrillation, atrial flutter and pre-excitation. It was concluded that the process of learning the machine learned features of the normal ECG signal, currently sacrifices the accuracy for higher generalization. It performs better at discriminating the presence of abnormal events in ECG than classifying different types of events. In the future, these algorithms could represent a huge contribution in signal acquisition for wearables and the study of pathologies visible in not only in ECG, but also EMG and respiratory signals, especially applied to active learning

Heart Diseases Diagnosis Using Artificial Neural Networks

Information technology has virtually altered every aspect of human life in the present era. The application of informatics in the health sector is rapidly gaining prominence and the benefits of this innovative paradigm are being realized across the globe. This evolution produced large number of patients’ data that can be employed by computer technologies and machine learning techniques, and turned into useful information and knowledge. This data can be used to develop expert systems to help in diagnosing some life-threating diseases such as heart diseases, with less cost, processing time and improved diagnosis accuracy. Even though, modern medicine is generating huge amount of data every day, little has been done to use this available data to solve challenges faced in the successful diagnosis of heart diseases. Highlighting the need for more research into the usage of robust data mining techniques to help health care professionals in the diagnosis of heart diseases and other debilitating disease conditions. Based on the foregoing, this thesis aims to develop a health informatics system for the classification of heart diseases using data mining techniques focusing on Radial Basis functions and emerging Neural Networks approach. The presented research involves three development stages; firstly, the development of a preliminary classification system for Coronary Artery Disease (CAD) using Radial Basis Function (RBF) neural networks. The research then deploys the deep learning approach to detect three different types of heart diseases i.e. Sleep Apnea, Arrhythmias and CAD by designing two novel classification systems; the first adopt a novel deep neural network method (with Rectified Linear unit activation) design as the second approach in this thesis and the other implements a novel multilayer kernel machine to mimic the behaviour of deep learning as the third approach. Additionally, this thesis uses a dataset obtained from patients, and employs normalization and feature extraction means to explore it in a unique way that facilitates its usage for training and validating different classification methods. This unique dataset is useful to researchers and practitioners working in heart disease treatment and diagnosis. The findings from the study reveal that the proposed models have high classification performance that is comparable, or perhaps exceed in some cases, the existing automated and manual methods of heart disease diagnosis. Besides, the proposed deep-learning models provide better performance when applied on large data sets (e.g., in the case of Sleep Apnea), with reasonable performance with smaller data sets. The proposed system for clinical diagnoses of heart diseases, contributes to the accurate detection of such disease, and could serve as an important tool in the area of clinic support system. The outcome of this study in form of implementation tool can be used by cardiologists to help them make more consistent diagnosis of heart diseases

Application of federated learning techniques for arrhythmia classification using 12-lead ECG signals

Artificial Intelligence-based (AI) analysis of large, curated medical datasets is promising for providing early detection, faster diagnosis, and more effective treatment using low-power Electrocardiography (ECG) monitoring devices information. However, accessing sensitive medical data from diverse sources is highly restricted since improper use, unsafe storage, or data leakage could violate a person's privacy. This work uses a Federated Learning (FL) privacy-preserving methodology to train AI models over heterogeneous sets of high-definition ECG from 12-lead sensor arrays collected from six heterogeneous sources. We evaluated the capacity of the resulting models to achieve equivalent performance compared to state-of-the-art models trained in a Centralized Learning (CL) fashion. Moreover, we assessed the performance of our solution over Independent and Identical distributed (IID) and non-IID federated data. Our methodology involves machine learning techniques based on Deep Neural Networks and Long-Short-Term Memory models. It has a robust data preprocessing pipeline with feature engineering, selection, and data balancing techniques. Our AI models demonstrated comparable performance to models trained using CL, IID, and non-IID approaches. They showcased advantages in reduced complexity and faster training time, making them well-suited for cloud-edge architectures.Comment: Preprint of International Symposium on Algorithmic Aspects of Cloud Computing (ALGOCLOUD) 202

Deep Neural Networks for ECG-Based Pulse Detection during Out-of-Hospital Cardiac Arrest

The automatic detection of pulse during out-of-hospital cardiac arrest (OHCA) is necessary for the early recognition of the arrest and the detection of return of spontaneous circulation (end of the arrest). The only signal available in every single defibrillator and valid for the detection of pulse is the electrocardiogram (ECG). In this study we propose two deep neural network (DNN) architectures to detect pulse using short ECG segments (5 s), i.e., to classify the rhythm into pulseless electrical activity (PEA) or pulse-generating rhythm (PR). A total of 3914 5-s ECG segments, 2372 PR and 1542 PEA, were extracted from 279 OHCA episodes. Data were partitioned patient-wise into training (80%) and test (20%) sets. The first DNN architecture was a fully convolutional neural network, and the second architecture added a recurrent layer to learn temporal dependencies. Both DNN architectures were tuned using Bayesian optimization, and the results for the test set were compared to state-of-the art PR/PEA discrimination algorithms based on machine learning and hand crafted features. The PR/PEA classifiers were evaluated in terms of sensitivity (Se) for PR, specificity (Sp) for PEA, and the balanced accuracy (BAC), the average of Se and Sp. The Se/Sp/BAC of the DNN architectures were 94.1%/92.9%/93.5% for the first one, and 95.5%/91.6%/93.5% for the second one. Both architectures improved the performance of state of the art methods by more than 1.5 points in BAC.This work was supported by: The Spanish Ministerio de Economía y Competitividad, TEC2015-64678-R, jointly with the Fondo Europeo de Desarrollo Regional (FEDER), UPV/EHU via GIU17/031 and the Basque Government through the grant PRE_2018_2_0260

Wearable Technologies and AI at the Far Edge for Chronic Heart Failure Prevention and Management: A Systematic Review and Prospects

Smart wearable devices enable personalized at-home healthcare by unobtrusively collecting patient health data and facilitating the development of intelligent platforms to support patient care and management. The accurate analysis of data obtained from wearable devices is crucial for interpreting and contextualizing health data and facilitating the reliable diagnosis and management of critical and chronic diseases. The combination of edge computing and artificial intelligence has provided real-time, time-critical, and privacy-preserving data analysis solutions. However, based on the envisioned service, evaluating the additive value of edge intelligence to the overall architecture is essential before implementation. This article aims to comprehensively analyze the current state of the art on smart health infrastructures implementing wearable and AI technologies at the far edge to support patients with chronic heart failure (CHF). In particular, we highlight the contribution of edge intelligence in supporting the integration of wearable devices into IoT-aware technology infrastructures that provide services for patient diagnosis and management. We also offer an in-depth analysis of open challenges and provide potential solutions to facilitate the integration of wearable devices with edge AI solutions to provide innovative technological infrastructures and interactive services for patients and doctors

Deep learning for healthcare applications based on physiological signals: A review

Background and objective: We have cast the net into the ocean of knowledge to retrieve the latest scientific research on deep learning methods for physiological signals. We found 53 research papers on this topic, published from 01.01.2008 to 31.12.2017. Methods: An initial bibliometric analysis shows that the reviewed papers focused on Electromyogram(EMG), Electroencephalogram(EEG), Electrocardiogram(ECG), and Electrooculogram(EOG). These four categories were used to structure the subsequent content review. Results: During the content review, we understood that deep learning performs better for big and varied datasets than classic analysis and machine classification methods. Deep learning algorithms try to develop the model by using all the available input. Conclusions: This review paper depicts the application of various deep learning algorithms used till recently, but in future it will be used for more healthcare areas to improve the quality of diagnosi

Hardware Implementation of Deep Network Accelerators Towards Healthcare and Biomedical Applications

With the advent of dedicated Deep Learning (DL) accelerators and neuromorphic processors, new opportunities are emerging for applying deep and Spiking Neural Network (SNN) algorithms to healthcare and biomedical applications at the edge. This can facilitate the advancement of the medical Internet of Things (IoT) systems and Point of Care (PoC) devices. In this paper, we provide a tutorial describing how various technologies ranging from emerging memristive devices, to established Field Programmable Gate Arrays (FPGAs), and mature Complementary Metal Oxide Semiconductor (CMOS) technology can be used to develop efficient DL accelerators to solve a wide variety of diagnostic, pattern recognition, and signal processing problems in healthcare. Furthermore, we explore how spiking neuromorphic processors can complement their DL counterparts for processing biomedical signals. After providing the required background, we unify the sparsely distributed research on neural network and neuromorphic hardware implementations as applied to the healthcare domain. In addition, we benchmark various hardware platforms by performing a biomedical electromyography (EMG) signal processing task and drawing comparisons among them in terms of inference delay and energy. Finally, we provide our analysis of the field and share a perspective on the advantages, disadvantages, challenges, and opportunities that different accelerators and neuromorphic processors introduce to healthcare and biomedical domains. This paper can serve a large audience, ranging from nanoelectronics researchers, to biomedical and healthcare practitioners in grasping the fundamental interplay between hardware, algorithms, and clinical adoption of these tools, as we shed light on the future of deep networks and spiking neuromorphic processing systems as proponents for driving biomedical circuits and systems forward.Comment: Submitted to IEEE Transactions on Biomedical Circuits and Systems (21 pages, 10 figures, 5 tables

A novel automated tower graph based ECG signal classification method with hexadecimal local adaptive binary pattern and deep learning

Electrocardiography (ECG) signal recognition is one of the popular research topics for machine learning. In this paper, a novel transformation called tower graph transformation is proposed to classify ECG signals with high accuracy rates. It employs a tower graph, which uses minimum, maximum and average pooling methods altogether to generate novel signals for the feature extraction. In order to extract meaningful features, we presented a novel one-dimensional hexadecimal pattern. To select distinctive and informative features, an iterative ReliefF and Neighborhood Component Analysis (NCA) based feature selection is utilized. By using these methods, a novel ECG signal classification approach is presented. In the preprocessing phase, tower graph-based pooling transformation is applied to each signal. The proposed one-dimensional hexadecimal adaptive pattern extracts 1536 features from each node of the tower graph. The extracted features are fused and 15,360 features are obtained and the most discriminative 142 features are selected by the ReliefF and iterative NCA (RFINCA) feature selection approach. These selected features are used as an input to the artificial neural network and deep neural network and 95.70% and 97.10% classification accuracy was obtained respectively. These results demonstrated the success of the proposed tower graph-based method.</p