Deep Convolutional Autoencoders vs PCA in a Highly-Unbalanced Parkinson’s Disease Dataset: A DaTSCAN Study

Abstract

The automated analysis of medical imaging, especially brain imaging, is a challenging high-dimensional task. Computer Aided Diagnosis (CAD) tools often require the images to be spatially normalized and then perform feature extraction to be able to avoid the small sample size problem. However, the spatial normalization often introduces artefacts, especially in functional imaging. Furthermore, variance-based decomposition techniques like PCA, which are extensively used in CAD tools, often perform poorly in highly-unbalanced dataset. To overcome these two problems, we propose a deep Convolutional Autoencoder (CAE) architecture that performs image decomposition -or encoding- in images that were not spatially normalized. A CAD system that used CAE for feature extraction and a Support Vector Machine Classifier (SVC) for classification was tested on a strongly imbalanced (5.69/1) Parkinson’s Disease (PD) neuroimaging dataset from the Parkinson’s Progression Markers Initiative (PPMI), achieving more than 93% accuracy in detecting PD with DaTSCAN imaging, and a area under the ROC curve higher than 0.96. This system paves the way for new deep learning decompositions that bypass the common spatial normalization step and are able to extract relevant information in highly-imbalanced datasets.