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Diffusion tensor imaging (DTI) has been used to explore changes in the brain of subjects with human immunodeficiency virus (HIV) infection. However, DTI notoriously suffers from low specificity. Neurite orientation dispersion and density imaging (NODDI) is a compartmental model able to provide specific microstructural information with additional sensitivity/specificity. In this study we use both the NODDI and the DTI models to evaluate microstructural differences between 35 HIV-positive patients and 20 healthy controls. Diffusion-weighted imaging was acquired using three b-values (0, 1000 and 2500 s/mm2). Both DTI and NODDI models were fitted to the data, obtaining estimates for fractional anisotropy (FA), mean diffusivity (MD), radial diffusivity (RD), axial diffusivity (AD), neurite density index (NDI) and orientation dispersion index (ODI), after which we performed group comparisons using Tract-based spatial statistics (TBSS). While significant group effects were found in in FA, MD, RD, AD and NDI, NDI analysis uncovered a much wider involvement of brain tissue in HIV infection as compared to DTI. In region-of interest (ROI)-based analysis, NDI estimates from the right corticospinal tract produced excellent performance in discriminating the two groups (AUC = 0.974, sensitivity = 90%; specificity =97%).The human immunodeficiency virus (HIV) causes an infectious disease with a high viral tropism toward CD4 T-lymphocytes and macrophage. Since the advent of combined antiretroviral therapy (CART), the number of opportunistic infectious disease has diminished, turning HIV into a chronic condition. Nevertheless, HIV-infected patients suffer from several life-long symptoms, including the HIV-associated neurocognitive disorder (HAND), whose biological substrates remain unclear. HAND includes a range of cognitive impairments which have a huge impact on daily patient life. The aim of this study was to examine putative structural brain network changes in HIV-infected patient to test whether diffusion-imaging-related biomarkers could be used to discover and characterize subtle neurological alterations in HIV infection. To this end, we employed multi-shell, multi-tissue constrained spherical deconvolution in conjunction with probabilistic tractography and graph-theoretical analyses. selleck chemicals llc We found several statistically significant effects in both local (right postcentral gyrus, right precuneus, right inferior parietal lobule, right transverse temporal gyrus, right inferior temporal gyrus, right putamen and right pallidum) and global graph-theoretical measures (global clustering coefficient, global efficiency and transitivity). Our study highlights a global and local reorganization of the structural connectome which support the possible application of graph theory to detect subtle alteration of brain regions in HIV patients.Clinical Relevance-Brain measures able to detect subtle alteration in HIV patients could also be used in e.g. evaluating therapeutic responses, hence empowering clinical trials.We present a new scheme for Alzheimer's Disease (AD) automatic assessment, based on Archimedes spiral, drawn on a digitizing tablet. We propose to enrich spiral images generated from the raw sequence of pen coordinates with dynamic information (pressure, altitude, velocity) represented with a semi-global encoding in RGB images. By exploiting Transfer Learning, such hybrid images are given as input to a deep network for an automatic high-level feature extraction. Experiments on 30 AD patients and 45 Healthy Controls (HC) showed that the hybrid representations allow a considerable improvement of classification performance, compared to those obtained on raw spiral images. We reach, with SVM classifiers, an accuracy of 79% with pressure, 76% with velocity, and 70.5% with altitude. The analysis with PCA of internal features of the deep network, showed that dynamic information included in images explain a much higher amount of variance compared to raw images. Moreover, our study demonstrates the need for a semi-global description of dynamic parameters, for a better discrimination of AD and HC classes. This description allows uncovering specific trends on the dynamics for both classes. Finally, combining the decisions of the three SVMs leads to 81.5% of accuracy.Clinical Relevance- This work proposes a decision-aid tool for detecting AD at an early stage, based on a non-invasive simple graphic task, executed on a Wacom digitizer. This task can be considered in the battery of usual clinical tests.From generating never-before-seen images to domain adaptation, applications of Generative Adversarial Networks (GANs) spread wide in the domain of vision and graphics problems. With the remarkable ability of GANs in learning the distribution and generating images of a particular class, they have been used for semi-supervised disease detection in medical images such as COVID-19 and Pneumonia in X-rays. However, the challenge is that if two classes of images share similar characteristics, the GAN might learn to generalize and hinder the classification of the two classes. In this paper, first we use MNIST and Fashion-MNIST datasets that are easy to visually inspect, to illustrate how similar images cause the GAN to generalize, leading to the poor classification of images. We then show how this generalization can misclassify pneumonia X-rays as healthy cases when using GANs for semi-supervised detection of pneumonia. We propose a modification to the traditional training of GANs that, using small sets of labeled data, allows for improved classification in similar classes of images in a semi-supervised learning framework.Ultrasound imaging can be used to visualize the spinal cord and assess localized cord perfusion. We present in vivo data in an ovine model undergoing spinal cord stimulation and propose development of transcutaneous US imaging as a potential non-invasive imaging modality in spinal cord injury.Clinical Relevance- Ultrasound imaging can be used to aid in prognosis and diagnosis by providing qualitative and quantitative characterization of the spinal cord. This modality can be developed as a low cost, portable, and non-invasive imaging technique in spinal injury patients.Radiomics was proposed to identify tumor phenotypes non-invasively from quantitative imaging features. Calculating a large amount of information on images, allows the development of reliable classification models. In multi-modal imaging protocols, the question arises of adding an imaging modality to improve model performance. In addition, in the implementation of clinical protocols, some modalities are not acquired or are of insufficient quality and cannot be reliably taken into account. Furthermore, multi-scanner studies generate some variability in the acquisition and data. Some methodological solutions using ComBat and a multi-model approach were tested to take these two issues into account. It was applied to a cohort of 88 patients with Diffuse Intrinsic Pontine Glioma (DIPG). Sixteen models using radiomic features computed using 0, 1, 2, 3 or 4 MRI modalities were proposed. Based on Leave-One-Out Cross-Validation, F1 weighted scores ranged from 0.66 to 0.85. A model of majority voting using the prediction of all the models available for one given patient was finally applied, reducing drastically the number of unclassified patients.Clinical relevance- In case of patients with DIPG, the prediction of H3 mutation is of prime importance in case of inconclusive biopsy or in the absence of it. It could suggest orientations for new chemotherapy drugs associated with the radiation therapy.Conventionally, as a preprocessing step, functional MRI (fMRI) data are spatially smoothed before further analysis, be it for activation mapping on task-based fMRI or functional connectivity analysis on resting-state fMRI data. When images are smoothed volumetrically, however, isotropic Gaussian kernels are generally used, which do not adapt to the underlying brain structure. Alternatively, cortical surface smoothing procedures provide the benefit of adapting the smoothing process to the underlying morphology, but require projecting volumetric data on to the surface. In this paper, leveraging principles from graph signal processing, we propose a volumetric spatial smoothing method that takes advantage of the gray-white and pial cortical surfaces, and as such, adapts the filtering process to the underlying morphological details at each point in the cortex.Coronary artery disease (CAD) is an important cause of morbidity and mortality. CT coronary angiography is considered as first-line of investigation in patients suspected of having CAD. Coronary artery centerline extraction is a challenging prerequisite for coronary artery stenosis evaluation. These challenges include the small and complex structure, variation of plaques and imaging noise. Deep learning methods often require adequate annotated data to build a good model. This work aims to adopt a dataset that has partial annotation to augment the data to train a Coronary Neural Network (CorNN) to track the coronary artery centerline. We combined a small training dataset with densely labelled centerline and radius, augmented with a larger dataset with only the centerline sparsely labelled to train networks to track centerlines from 3D computed tomography coronary angiography. The vessel orientation estimation is patch based, with or without additional radius prediction. The patch data are carefully positioned and sampled, which are tagged with the orientations computed based on the centerlines. Our experiment results show that, with the augmentation of the new data, although partially annotated, nearly 10% or more improvement has been achieved for the coronary artery extraction by the proposed approach.Cardiac Cine Magnetic Resonance (CMR) Imaging has made a significant paradigm shift in medical imaging technology, thanks to its capability of acquiring high spatial and temporal resolution images of different structures within the heart that can be used for reconstructing patient-specific ventricular computational models. In this work, we describe the development of dynamic patient-specific right ventricle (RV) models associated with normal subjects and abnormal RV patients to be subsequently used to assess RV function based on motion and kinematic analysis. We first constructed static RV models using segmentation masks of cardiac chambers generated from our accurate, memory-efficient deep neural architecture - CondenseUNet - featuring both a learned group structure and a regularized weight-pruner to estimate the motion of the right ventricle. In our study, we use a deep learning-based deformable network that takes 3D input volumes and outputs a motion field which is then used to generate isosurface meshes of the cardiac geometry at all cardiac frames by propagating the end-diastole (ED) isosurface mesh using the reconstructed motion field. The proposed model was trained and tested on the Automated Cardiac Diagnosis Challenge (ACDC) dataset featuring 150 cine cardiac MRI patient datasets. The isosurface meshes generated using the proposed pipeline were compared to those obtained using motion propagation via traditional non-rigid registration based on several performance metrics, including Dice score and mean absolute distance (MAD).
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