Selene Tomassini

The brain is the organ most studied using Magnetic Resonance (MR). The emergence of 7T scanners has increased MR imaging resolution to a sub-millimeter level. However, there is a lack of automatic segmentation techniques for 7T MR volumes. This research aims to develop a novel deep learning-based algorithm for on-cloud brain extraction and multi-structure segmentation from unenhanced 7T MR volumes. To this aim, a double-stage 3D U-Net was implemented in a cloud service, directing its first stage to the automatic extraction of the brain and its second stage to the automatic segmentation of the grey matter, basal ganglia, white matter, ventricles, cerebellum, and brain stem. The training was performed on the 90% (the 10% of which served for validation) and the test on the 10% of the Glasgow database. A mean test Dice Similarity Coefficient (DSC) of 96.33% was achieved for the brain class. Mean test DSCs of 90.24%, 87.55%, 93.82%, 85.77%, 91.53%, and 89.95% were achieved for the brain structure classes, respectively. Therefore, the proposed double-stage 3D U-Net is effective in brain extraction and multi-structure segmentation from 7T MR volumes without any preprocessing and training data augmentation strategy while ensuring its machine-independent reproducibility.

Knowledge about the anatomical structures of the left heart, specifically the atrium (LA) and ventricle (i.e., endocardium—Vendo—and epicardium—LVepi) is essential for the evaluation of cardiac functionality. Manual segmentation of cardiac structures from echocardiography is the baseline reference, but results are user-dependent and time-consuming. With the aim of supporting clinical practice, this paper presents a new deep-learning (DL)-based tool for segmenting anatomical structures of the left heart from echocardiographic images. Specifically, it was designed as a combination of two convolutional neural networks, the YOLOv7 algorithm and a U-Net, and it aims to automatically segment an echocardiographic image into LVendo, LVepi and LA. The DL-based tool was trained and tested on the Cardiac Acquisitions for Multi-Structure Ultrasound Segmentation (CAMUS) dataset of the University Hospital of St. Etienne, which consists of echocardiographic images from 450 patients. For each patient, apical two- and four-chamber views at end-systole and end-diastole were acquired and annotated by clinicians. Globally, our DL-based tool was able to segment LVendo, LVepi and LA, providing Dice similarity coefficients equal to 92.63%, 85.59%, and 87.57%, respectively. In conclusion, the presented DL-based tool proved to be reliable in automatically segmenting the anatomical structures of the left heart and supporting the cardiological clinical practice.