Computational Predictions for Protein Sequences of COVID-19 Virus via Machine Learning Algorithms

Résumé

Abstract The coronavirus infection is increasingly evolving to be an international epidemic in 27 countries as a serious respiratory disease. Therefore, the computational biology carrying this virus that correlated with the human population is urgently needed. In this paper, the classification of the human protein sequences of COVID-19 according to the country is applied by machine learning algorithms. The proposed model is based on the distinguishing of 9238 sequences by three stages including data preprocessing, data labeling, and classification. In the first stage, the function of data preprocessing converts the amino acids of COVID-19 protein sequences to eight groups of numbers based on volume and dipole of the amino acids. In the second stage, there are two methods for data labeling of 27 countries from 0 to 26. The first method is based on the selection of one number for each country according to the code number of countries while the second method is based on binary elements only for each country. The classification algorithms are executed to discover different COVID-19 protein sequences according to their countries. The findings are concluded that the accuracy of 100% performed by country based binary labeling method with Linear Regression (LR) or K-Nearest Neighbor (KNN) or Support Vector Machine (SVM) classifiers. Further, it found that the USA with large data records in infection rate has more priority for correct classification compared to other countries with a low data rate. The unbalanced data for COVID-19 protein sequences is considered a major issue, especially the available data in USA represented 76% from a total of 9238 sequences. As a consequence, this proposed model will help as a diagnostic bioinformatics tool for the COVID-19 protein sequences among different countries.

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