Classifying COVID-19 based on amino acids encoding with machine learning algorithms

Can some algorithms of machine learning identify osteoporosis patients after training and testing some clinical information about patients?

OBJECTIVE

This study was designed to establish a diagnostic model for osteoporosis by collecting clinical information from patients with and without osteoporosis. Various machine learning algorithms were employed for training and testing the model, evaluating its performance, and conducting validations to explore the most suitable machine learning algorithm.

METHODS

Clinical information, including demographic data, examination results, medical history, and laboratory test results, was collected from inpatients with and without osteoporosis. The LASSO algorithm was utilized for feature selection, and multiple machine learning algorithms were applied to calculate the model's accuracy, precision, recall, F1 score, and average precision (AP) value. Receiver operating characteristic (ROC) curves for each algorithm were plotted, and a comprehensive evaluation was conducted to identify the most suitable machine learning model. Finally, the model's predictive accuracy was validated using corresponding information from other patients.

RESULTS

A total of 1063 patients were included; 562 had osteoporosis, and 501 did not. After LASSO feature selection, the most important features for the model's predictive results were determined to be age, height, weight, alkaline phosphatase activity, and osteocalcin. Evaluation of the accuracy, precision, recall, F1 score, and AP value for each algorithm, along with ROC curves, led to the selection of the light gradient boosting machine (LGBM) algorithm as the best algorithm for the model. The validation results confirmed the model's excellent predictive ability.

CONCLUSION

This study established a preliminary diagnostic model for osteoporosis, contributing to increased efficiency in diagnosing the disease.

Generative Adversarial Network-Based Augmentation With Noval 2-Step Authentication for Anti-Coronavirus Peptide Prediction

The virus poses a longstanding and enduring danger to various forms of life. Despite the ongoing endeavors to combat viral diseases, there exists a necessity to explore and develop novel therapeutic options. Antiviral peptides are bioactive molecules with a favorable toxicity profile, making them promising alternatives for viral infection treatment. Therefore, this article employed a generative adversarial network for antiviral peptide augmentation and a novel two-step authentication process for augmented synthetic peptides to enhance antiviral activity prediction. Additionally, five widely utilized deep learning models were employed for classification purposes. Initially, a GAN was used to augment the antiviral peptide. In a two-step authentication process, the NCBI-BLAST was utilized to identify the antiviral activity resemblance between the synthetic and real peptide. Subsequently, the hydrophobicity, hydrophilicity, hydroxylic nature, positive charge, and negative charge of synthetic and authentic antiviral peptides were compared before their utilization. Later, to examine the impact of authenticated peptide augmentation in the prediction of antiviral peptides, a comparison is conducted with the outcomes of non-peptide augmented prediction. The study demonstrates that the 1-D convolution neural network with augmented peptide exhibits superior performance compared to other employed classifiers and state-of-the-art models. The network attains a mean classification accuracy of 95.41%, an AUC value of 0.95, and an MCC value of 0.90 on the benchmark antiviral and anti-corona peptides dataset. Thus, the performance of the proposed model indicates its efficacy in predicting the antiviral activity of peptides.

On the Use of Machine Learning Techniques and Non-Invasive Indicators for Classifying and Predicting Cardiac Disorders

This research aims to enhance the classification and prediction of ischemic heart diseases using machine learning techniques, with a focus on resource efficiency and clinical applicability. Specifically, we introduce novel non-invasive indicators known as Campello de Souza features, which require only a tensiometer and a clock for data collection. These features were evaluated using a comprehensive dataset of heart disease cases from a machine learning data repository. Our findings highlight the ability of machine learning algorithms to not only streamline diagnostic procedures but also reduce diagnostic errors and the dependency on extensive clinical testing. Three key features-mean arterial pressure, pulsatile blood pressure index, and resistance-compliance indicator-were found to significantly improve the accuracy of machine learning algorithms in binary heart disease classification. Logistic regression achieved the highest average accuracy among the examined classifiers when utilizing these features. While such novel indicators contribute substantially to the classification process, they should be integrated into a broader diagnostic framework that includes comprehensive patient evaluations and medical expertise. Therefore, the present study offers valuable insights for leveraging data science techniques in the diagnosis and management of cardiovascular diseases.

Crowding on public transport using smart card data during the COVID-19 pandemic: New methodology and case study in Chile

Most crowding measures in public transportation are usually aggregated at a service level. This type of aggregation does not help to analyze microscopic behavior such as exposure risk to viruses. To bridge such a gap, our paper proposes four novel crowding measures that might be well suited to proxy virus exposure risk at public transport. In addition, we conduct a case study in Santiago, Chile, using smart card data of the buses system to compute the proposed measures for three different and relevant periods of the COVID-19 pandemic: before, during, and after Santiago's lockdown. We find that the governmental policies diminished public transport crowding considerably for the lockdown phase. The average exposure time when social distancing is not possible passes from 6.39 min before lockdown to 0.03 min during the lockdown, while the average number of encountered persons passes from 43.33 to 5.89. We shed light on how the pandemic impacts differ across various population groups in society. Our findings suggest that poorer municipalities returned faster to crowding levels similar to those before the pandemic.

An Epidemiological Analysis for Assessing and Evaluating COVID-19 Based on Data Analytics in Latin American Countries

This research provides a detailed analysis of the COVID-19 spread across 14 Latin American countries. Using time-series analysis and epidemic models, we identify diverse outbreak patterns, which seem not to be influenced by geographical location or country size, suggesting the influence of other determining factors. Our study uncovers significant discrepancies between the number recorded COVID-19 cases and the real epidemiological situation, emphasizing the crucial need for accurate data handling and continuous surveillance in managing epidemics. The absence of a clear correlation between the country size and the confirmed cases, as well as with the fatalities, further underscores the multifaceted influences on COVID-19 impact beyond population size. Despite the decreased real-time reproduction number indicating quarantine effectiveness in most countries, we note a resurgence in infection rates upon resumption of daily activities. These insights spotlight the challenge of balancing public health measures with economic and social activities. Our core findings provide novel insights, applicable to guiding epidemic control strategies and informing decision-making processes in combatting the pandemic.

A Combined Method for Diabetes Mellitus Diagnosis Using Deep Learning, Singular Value Decomposition, and Self-Organizing Map Approaches

Diabetes in humans is a rapidly expanding chronic disease and a major crisis in modern societies. The classification of diabetics is a challenging and important procedure that allows the interpretation of diabetic data and diagnosis. Missing values in datasets can impact the prediction accuracy of the methods for the diagnosis. Due to this, a variety of machine learning techniques has been studied in the past. This research has developed a new method using machine learning techniques for diabetes risk prediction. The method was developed through the use of clustering and prediction learning techniques. The method uses Singular Value Decomposition for missing value predictions, a Self-Organizing Map for clustering the data, STEPDISC for feature selection, and an ensemble of Deep Belief Network classifiers for diabetes mellitus prediction. The performance of the proposed method is compared with the previous prediction methods developed by machine learning techniques. The results reveal that the deployed method can accurately predict diabetes mellitus for a set of real-world datasets.

Weibull Regression and Machine Learning Survival Models: Methodology, Comparison, and Application to Biomedical Data Related to Cardiac Surgery

In this article, we propose a comparative study between two models that can be used by researchers for the analysis of survival data: (i) the Weibull regression model and (ii) the random survival forest (RSF) model. The models are compared considering the error rate, the performance of the model through the Harrell C-index, and the identification of the relevant variables for survival prediction. A statistical analysis of a data set from the Heart Institute of the University of São Paulo, Brazil, has been carried out. In the study, the length of stay of patients undergoing cardiac surgery, within the operating room, was used as the response variable. The obtained results show that the RSF model has less error rate for the training and testing data sets, at 23.55% and 20.31%, respectively, than the Weibull model, which has an error rate of 23.82%. Regarding the Harrell C-index, we obtain the values 0.76, 0.79, and 0.76, for the RSF and Weibull models, respectively. After the selection procedure, the Weibull model contains variables associated with the type of protocol and type of patient being statistically significant at 5%. The RSF model chooses age, type of patient, and type of protocol as relevant variables for prediction. We employ the randomForestSRC package of the R software to perform our data analysis and computational experiments. The proposal that we present has many applications in biology and medicine, which are discussed in the conclusions of this work.

An intelligent health monitoring and diagnosis system based on the internet of things and fuzzy logic for cardiac arrhythmia COVID-19 patients

BACKGROUND

During the COVID-19 pandemic, there is a global demand for intelligent health surveillance and diagnosis systems for patients with critical conditions, particularly those with severe heart diseases. Sophisticated measurement tools are used in hospitals worldwide to identify serious heart conditions. However, these tools need the face-to-face involvement of healthcare experts to identify cardiac problems.

OBJECTIVE

To design and implement an intelligent health monitoring and diagnosis system for critical cardiac arrhythmia COVID-19 patients.

METHODOLOGY

We use artificial intelligence tools divided into two parts: (i) IoT-based health monitoring; and (ii) fuzzy logic-based medical diagnosis. The intelligent diagnosis of heart conditions and IoT-based health surveillance by doctors is offered to critical COVID-19 patients or isolated in remote locations. Sensors, cloud storage, as well as a global system for mobile texts and emails for communication with doctors in case of emergency are employed in our proposal.

RESULTS

Our implemented system favors remote areas and isolated critical patients. This system utilizes an intelligent algorithm that employs an ECG signal pre-processed by moving through six digital filters. Then, based on the processed results, features are computed and assessed. The intelligent fuzzy system can make an autonomous diagnosis and has enough information to avoid human intervention. The algorithm is trained using ECG data from the MIT-BIH database and achieves high accuracy. In real-time validation, the fuzzy algorithm obtained almost 100% accuracy for all experiments.

CONCLUSION

Our intelligent system can be helpful in many situations, but it is particularly beneficial for isolated COVID-19 patients who have critical heart arrhythmia and must receive intensive care.

Early Prediction in Classification of Cardiovascular Diseases with Machine Learning, Neuro-Fuzzy and Statistical Methods

Timely and accurate detection of cardiovascular diseases (CVDs) is critically important to minimize the risk of a myocardial infarction. Relations between factors of CVDs are complex, ill-defined and nonlinear, justifying the use of artificial intelligence tools. These tools aid in predicting and classifying CVDs. In this article, we propose a methodology using machine learning (ML) approaches to predict, classify and improve the diagnostic accuracy of CVDs, including support vector regression (SVR), multivariate adaptive regression splines, the M5Tree model and neural networks for the training process. Moreover, adaptive neuro-fuzzy and statistical approaches, nearest neighbor/naive Bayes classifiers and adaptive neuro-fuzzy inference system (ANFIS) are used to predict seventeen CVD risk factors. Mixed-data transformation and classification methods are employed for categorical and continuous variables predicting CVD risk. We compare our hybrid models and existing ML techniques on a CVD real dataset collected from a hospital. A sensitivity analysis is performed to determine the influence and exhibit the essential variables with regard to CVDs, such as the patient's age, cholesterol level and glucose level. Our results report that the proposed methodology outperformed well known statistical and ML approaches, showing their versatility and utility in CVD classification. Our investigation indicates that the prediction accuracy of ANFIS for the training process is 96.56%, followed by SVR with 91.95% prediction accuracy. Our study includes a comprehensive comparison of results obtained for the mentioned methods.

Machine learning and automatic ARIMA/Prophet models-based forecasting of COVID-19: methodology, evaluation, and case study in SAARC countries

Machine learning (ML) has proved to be a prominent study field while solving complex real-world problems. The whole globe has suffered and continues suffering from Coronavirus disease 2019 (COVID-19), and its projections need to be forecasted. In this article, we propose and derive an autoregressive modeling framework based on ML and statistical methods to predict confirmed cases of COVID-19 in the South Asian Association for Regional Cooperation (SAARC) countries. Automatic forecasting models based on autoregressive integrated moving average (ARIMA) and Prophet time series structures, as well as extreme gradient boosting, generalized linear model elastic net (GLMNet), and random forest ML techniques, are introduced and applied to COVID-19 data from the SAARC countries. Different forecasting models are compared by means of selection criteria. By using evaluation metrics, the best and suitable models are selected. Results prove that the ARIMA model is found to be suitable and ideal for forecasting confirmed infected cases of COVID-19 in these countries. For the confirmed cases in Afghanistan, Bangladesh, India, Maldives, and Sri Lanka, the ARIMA model is superior to the other models. In Bhutan, the Prophet time series model is appropriate for predicting such cases. The GLMNet model is more accurate than other time-series models for Nepal and Pakistan. The random forest model is excluded from forecasting because of its poor fit.

On a Novel Dynamics of SEIR Epidemic Models with a Potential Application to COVID-19

In this paper, we study a type of disease that unknowingly spreads for a long time, but by default, spreads only to a minimal population. This disease is not usually fatal and often goes unnoticed. We propose and derive a novel epidemic mathematical model to describe such a disease, utilizing a fractional differential system under the Atangana–Baleanu–Caputo derivative. This model deals with the transmission between susceptible, exposed, infected, and recovered classes. After formulating the model, equilibrium points as well as stability and feasibility analyses are stated. Then, we present results concerning the existence of positivity in the solutions and a sensitivity analysis. Consequently, computational experiments are conducted and discussed via proper criteria. From our experimental results, we find that the loss and regain of immunity result in the gain and loss of infections. Epidemic models can be linked to symmetry and asymmetry from distinct points of view. By using our novel approach, much research may be expected in epidemiology and other areas, particularly concerning COVID-19, to state how immunity develops after being infected by this virus.

An Equity-Based Optimization Model to Solve the Location Problem for Healthcare Centers Applied to Hospital Beds and COVID-19 Vaccination

Governments must consider different issues when deciding on the location of healthcare centers. In addition to the costs of opening such centers, three further elements should be addressed: accessibility, demand, and equity. Such locations must be chosen to meet the corresponding demand, so that they guarantee a socially equitable distribution, and to ensure that they are accessible to a sufficient degree. The location of the centers must be chosen from a set of possible facilities to guarantee certain minimum standards for the operational viability of the centers. Since the set of potential locations does not necessarily cover the demand of all geographical zones, the efficiency criterion must be maximized. However, the efficient distribution of resources does not necessarily meet the equity criterion. Thus, decision-makers must consider the trade-off between these two criteria: efficiency and equity. The described problem corresponds to the challenge that governments face in seeking to minimize the impact of the pandemic on citizens, where healthcare centers may be either public hospitals that care for COVID-19 patients or vaccination points. In this paper, we focus on the problem of a zone-divided region requiring the localization of healthcare centers. We propose a non-linear programming model to solve this problem based on a coverage formula using the Gini index to measure equity and accessibility. Then, we consider an approach using epsilon constraints that makes this problem solvable with mixed integer linear computations at each iteration. A simulation algorithm is also considered to generate problem instances, while computational experiments are carried out to show the potential use of the proposed mathematical programming model. The results show that the spatial distribution influences the coverage level of the healthcare system. Nevertheless, this distribution does not reduce inequity at accessible healthcare centers, as the distribution of the supply of health centers must be incorporated into the decision-making process.

A New Wavelet-Based Privatization Mechanism for Probability Distributions

In this paper, we propose a new privatization mechanism based on a naive theory of a perturbation on a probability using wavelets, such as a noise perturbs the signal of a digital image sensor. Wavelets are employed to extract information from a wide range of types of data, including audio signals and images often related to sensors, as unstructured data. Specifically, the cumulative wavelet integral function is defined to build the perturbation on a probability with the help of this function. We show that an arbitrary distribution function additively perturbed is still a distribution function, which can be seen as a privatized distribution, with the privatization mechanism being a wavelet function. Thus, we offer a mathematical method for choosing a suitable probability distribution for data by starting from some guessed initial distribution. Examples of the proposed method are discussed. Computational experiments were carried out using a database-sensor and two related algorithms. Several knowledge areas can benefit from the new approach proposed in this investigation. The areas of artificial intelligence, machine learning, and deep learning constantly need techniques for data fitting, whose areas are closely related to sensors. Therefore, we believe that the proposed privatization mechanism is an important contribution to increasing the spectrum of existing techniques.