Inferring linear-B cell epitopes using 2-step metaheuristic variant-feature selection using genetic algorithm.

Linear-B cell epitopes (LBCE) play a vital role in vaccine design; thus, efficiently detecting them from protein sequences is of primary importance. These epitopes consist of amino acids arranged in continuous or discontinuous patterns. Vaccines employ attenuated viruses and purified antigens. LBCE stimulate humoral immunity in the body, where B and T cells target circulating infections. To predict LBCE, the underlying protein sequences undergo a process of feature extraction, feature selection, and classification. Various system models have been proposed for this purpose, but their classification accuracy is only moderate. In order to enhance the accuracy of LBCE classification, this paper presents a novel 2-step metaheuristic variant-feature selection method that combines a linear support vector classifier (LSVC) with a Modified Genetic Algorithm (MGA). The feature selection model employs mono-peptide, dipeptide, and tripeptide features, focusing on the most diverse ones. These selected features are fed into a machine learning (ML)-based parallel ensemble classifier. The ensemble classifier combines correctly classified instances from various classifiers, including k-Nearest Neighbor (kNN), random forest (RF), logistic regression (LR), and support vector machine (SVM). The ensemble classifier came up with an impressively high accuracy of 99.3% as a result of its work. This accuracy is superior to the most recent models that are considered to be state-of-the-art for linear B-cell classification. As a direct consequence of this, the entire system model can now be utilised effectively in real-time clinical settings.

DL-TCNN: Deep Learning-based Temporal Convolutional Neural Network for prediction of conformational B-cell epitopes.

Prediction of conformational B-cell epitopes (CBCE) is an essential phase for vaccine design, drug invention, and accurate disease diagnosis. Many laboratorial and computational approaches have been developed to predict CBCE. However, laboratorial experiments are costly and time consuming, leading to the popularity of Machine Learning (ML)-based computational methods. Although ML methods have succeeded in many domains, achieving higher accuracy in CBCE prediction remains a challenge. To overcome this drawback and consider the limitations of ML methods, this paper proposes a novel DL-based framework for CBCE prediction, leveraging the capabilities of deep learning in the medical domain. The proposed model is named Deep Learning-based Temporal Convolutional Neural Network (DL-TCNN), which hybridizes empirical hyper-tuned 1D-CNN and TCN. TCN is an architecture that employs causal convolutions and dilations, adapting well to sequential input with extensive receptive fields. To train the proposed model, physicochemical features are firstly extracted from antigen sequences. Next, the Synthetic Minority Oversampling Technique (SMOTE) is applied to address the class imbalance problem. Finally, the proposed DL-TCNN is employed for the prediction of CBCE. The model's performance is evaluated and validated on a benchmark antigen-antibody dataset. The DL-TCNN achieves 94.44% accuracy, and 0.989 AUC score for the training dataset, 78.53% accuracy, and 0.661 AUC score for the validation dataset; and 85.10% accuracy, 0.855 AUC score for the testing dataset. The proposed model outperforms all the existing CBCE methods.

Machine learning based COVID -19 disease recognition using CT images of SIRM database.

The COVID-19 pandemic, probably one of the most widespread pandemics humanity has encountered in the twenty first century, caused death to almost 1.75 M people worldwide, impacting almost 80 M lives with direct contact. In order to contain the spread of coronavirus, it is necessary to develop a reliant and quick method to identify those who are affected and isolate them until full recovery is made. The imagery knowledge has been shown to be useful for quick COVID-19 diagnosis. Though the scans of computational tomography (CT) demonstrate a range of viral infection signals, considering the vast number of images, certain visual characteristics are challenging to distinguish and can take a long time to be identified by radiologists. In this study for detection of the COVID-19, a dataset is formed by taking 3764 images. The feature extraction process is applied to the dataset to increase the classification performance. Techniques like Grey Level Co-occurrence Matrix (GLCM) and Discrete Wavelet Transform (DWT) are used for feature extraction. Then various machine learning algorithms applied such as Support Vector Machines (SVM), Linear Discriminant Analysis (LDA), Multi- Level Perceptron, Naive Bayes, K-Nearest Neighbours and Random Forests are used for classification of COVID-19 disease detection. Sensitivity, Specificity, Accuracy, Precision, and F-score are the metrics used to measure the performance of different machine learning models. Among these machine learning models SVM with GLCM as feature extraction technique using 10-fold cross validation gives the best classification result with 99.70% accuracy, 99.80% sensitivity and 97.03% F-score. We also ran these tests on different data sets and found that the results are similar across those too, as discussed later in the results section.

Effective forecasting of stock market price by using extreme learning machine optimized by PSO-based group oriented crow search algorithm.

Stock index price forecasting is the influential indicator for investors and financial investigators by which decision making capability to achieve maximum benefit with minimum risk can be improved. So, a robust engine with capability to administer useful information is desired to achieve the success. The forecasting effectiveness of stock market is improved in this paper by integrating a modified crow search algorithm (CSA) and extreme learning machine (ELM). The effectiveness of proposed modified CSA entitled as Particle Swarm Optimization (PSO)-based Group oriented CSA (PGCSA) to outperform other existing algorithms is observed by solving 12 benchmark problems. PGCSA algorithm is used to achieve relevant weights and biases of ELM to improve the effectiveness of conventional ELM. The impact of hybrid PGCSA ELM model to predict next day closing price of seven different stock indices is observed by using performance measures, technical indicators and hypothesis test (paired t-test). The seven stock indices are considered by incorporating data during COVID-19 outbreak. This model is tested by comparing with existing techniques proposed in published works. The simulation results provide that PGCSA ELM model can be considered as a suitable tool to predict next day closing price.

Automated detection of arrhythmia from electrocardiogram signal based on new convolutional encoded features with bidirectional long short-term memory network classifier.

Early detection of cardiac arrhythmia is needed to reduce mortality. Automatically detecting the cardiac arrhythmias is a very challenging task. In this paper, a new deep convolutional encoded feature (CEF) based on non-linear compression composition is applied to diminish the ECG signal segment size. Bidirectional long short-term memory (BLSTM) network classifier has been proposed to detect arrhythmias from the ECG signal, which is encoded by the convolutional encoder. These encoded features are used as the input to BLSTM network classifier. For performance comparison, three other classifiers, namely unidirectional long short-term memory (ULSTM) network, gated recurrent Unit (GRU) and multilayer perceptron, are designed. The experimental studies detect and classify arrhythmias present in the MIT-BIH arrhythmia database into five different heartbeat classes. These heartbeat classes are normal (N), left bundle branch block (L), right bundle branch block(R), paced (P) and premature ventricular contraction (V). Evaluation of performance and system efficiency has been done with the help of four different types of evaluation criteria which are overall accuracy, precision, recall, and F-score. The experimental results indicate that the BLSTM network has achieved an overall accuracy of 99.52% with the processing time of only 6.043 s.

Automatic detection of arrhythmia from imbalanced ECG database using CNN model with SMOTE.

Timely prediction of cardiovascular diseases with the help of a computer-aided diagnosis system minimizes the mortality rate of cardiac disease patients. Cardiac arrhythmia detection is one of the most challenging tasks, because the variations of electrocardiogram(ECG) signal are very small, which cannot be detected by human eyes. In this study, an 11-layer deep convolutional neural network model is proposed for classification of the MIT-BIH arrhythmia database into five classes according to the ANSI-AAMI standards. In this CNN model, we designed a complete end-to-end structure of the classification method and applied without the denoising process of the database. The major advantage of the new methodology proposed is that the number of classifications will reduce and also the need to detect, and segment the QRS complexes, obviated. This MIT-BIH database has been artificially oversampled to handle the minority classes, class imbalance problem using SMOTE technique. This new CNN model was trained on the augmented ECG database and tested on the real dataset. The experimental results portray that the developed CNN model has better performance in terms of precision, recall, F-score, and overall accuracy as compared to the work mentioned in the literatures. These results also indicate that the best performance accuracy of 98.30% is obtained in the 70:30 train-test data set.