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Multiple sclerosis (MS) is a chronic neurological disease of the central nervous system (CNS). Early diagnosis of MS is highly desirable as treatments are more effective in preventing MS-related disability when given in the early stages of the disease. The main aim of this research is to predict the occurrence of a second MS-related clinical event, which indicates the conversion of clinically isolated syndrome (CIS) to clinically definite MS (CDMS). In this study, we apply a branch of artificial intelligence known as deep learning and develop a fully automated algorithm primed with convolutional neural network (CNN) that has the ability to learn from MRI scan features. The basic architecture of our algorithm is that of the VGG16 CNN model, but amended such that it can handle MRI DICOM images. A dataset comprised of scans acquired using two different scanners was used for the purposes of verification of the algorithm. A group of 49 patients had volumetric MRI scans taken at onset of the disease and then again one year later using one of the two scanners. In total, this yielded 7360 images which were then used for training, validation, and testing of the algorithm. Initially, these raw images were taken through 4 steps of preprocessing. In order to boost the efficiency of the process, we pretrained our algorithm using the publicly available ADNI dataset used to classify Alzheimer's disease. Finally, we used our preprocessed dataset to train and test the algorithm. Clinical evaluation conducted a year after the first time point revealed that 26 of the 49 patients had converted to CDMS, while the remaining 23 had not. Results of testing showed that our algorithm was able to predict the clinical results with an accuracy of 88.8% and with an area under the curve (AUC) of 91%. A highly accurate algorithm was developed using CNN approach to reliably predict conversion of patients with CIS to CDMS using MRI data from two different scanners. [ABSTRACT FROM AUTHOR]