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Sep 26, 2023
Fluid dynamics computations for tube-like geometries are important for biomedical evaluation of vascular and airway fluid dynamics. Physics-Informed Neural Networks (PINNs) have recently emerged as a good alternative to traditional computational fluid dynamics (CFD) methods. The vanilla PINN, however, requires much longer training time than the traditional CFD methods for each specific flow scenario and thus does not justify its mainstream use. Here, we explore the use of the multi-case PINN approach for calculating biomedical tube flows, where varied geometry cases are parameterized and pre-trained on the PINN, such that results for unseen geometries can be obtained in real time. Our objective is to identify network architecture, tube-specific, and regularization strategies that can optimize this, via experiments on a series of idealized 2D stenotic tube flows.
Multi-scale, Data-driven and Anatomically Constrained Deep Learning Image Registration for Adult and Fetal Echocardiography
Sep 11, 2023
Temporal echocardiography image registration is a basis for clinical quantifications such as cardiac motion estimation, myocardial strain assessments, and stroke volume quantifications. In past studies, deep learning image registration (DLIR) has shown promising results and is consistently accurate and precise, requiring less computational time. We propose that a greater focus on the warped moving image's anatomic plausibility and image quality can support robust DLIR performance. Further, past implementations have focused on adult echocardiography, and there is an absence of DLIR implementations for fetal echocardiography. We propose a framework that combines three strategies for DLIR in both fetal and adult echo: (1) an anatomic shape-encoded loss to preserve physiological myocardial and left ventricular anatomical topologies in warped images; (2) a data-driven loss that is trained adversarially to preserve good image texture features in warped images; and (3) a multi-scale training scheme of a data-driven and anatomically constrained algorithm to improve accuracy. Our tests show that good anatomical topology and image textures are strongly linked to shape-encoded and data-driven adversarial losses. They improve different aspects of registration performance in a non-overlapping way, justifying their combination. Despite fundamental distinctions between adult and fetal echo images, we show that these strategies can provide excellent registration results in both adult and fetal echocardiography using the publicly available CAMUS adult echo dataset and our private multi-demographic fetal echo dataset. Our approach outperforms traditional non-DL gold standard registration approaches, including Optical Flow and Elastix. Registration improvements could be translated to more accurate and precise clinical quantification of cardiac ejection fraction, demonstrating a potential for translation.
Skin Lesion Analysis: A State-of-the-Art Survey, Systematic Review, and Future Trends
Aug 25, 2022
The Computer-aided Diagnosis (CAD) system for skin lesion analysis is an emerging field of research that has the potential to relieve the burden and cost of skin cancer screening. Researchers have recently indicated increasing interest in developing such CAD systems, with the intention of providing a user-friendly tool to dermatologists in order to reduce the challenges that are raised by manual inspection. The purpose of this article is to provide a complete literature review of cutting-edge CAD techniques published between 2011 and 2020. The Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) method was used to identify a total of 365 publications, 221 for skin lesion segmentation and 144 for skin lesion classification. These articles are analyzed and summarized in a number of different ways so that we can contribute vital information about the methods for the evolution of CAD systems. These ways include: relevant and essential definitions and theories, input data (datasets utilization, preprocessing, augmentations, and fixing imbalance problems), method configuration (techniques, architectures, module frameworks, and losses), training tactics (hyperparameter settings), and evaluation criteria (metrics). We also intend to investigate a variety of performance-enhancing methods, including ensemble and post-processing. In addition, in this survey, we highlight the primary problems associated with evaluating skin lesion segmentation and classification systems using minimal datasets, as well as the potential solutions to these plights. In conclusion, enlightening findings, recommendations, and trends are discussed for the purpose of future research surveillance in related fields of interest. It is foreseen that it will guide researchers of all levels, from beginners to experts, in the process of developing an automated and robust CAD system for skin lesion analysis.