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Computer models of cardiac electro-mechanics (EM) show promise as an effective means for quantitative analysis of clinical data and, potentially, for predicting therapeutic responses.realize such advanced applications methodological key…
We present teraflop-scale calculations of biomolecular electrostatics enabled by the combination of algorithmic and hardware acceleration. The algorithmic acceleration is achieved with the fast multipole method (FMM) in conjunction with a…
In the present study, we consider the Extra-Membrane-Intra model (EMI) for the simulation of excitable tissues at the cellular level. We provide the (possibly large) system of partial differential equations (PDEs), equipped with ad hoc…
Hybrid computational architectures based on the joint power of Central Processing Units and Graphic Processing Units (GPUs) are becoming popular and powerful hardware tools for a wide range of simulations in biology, chemistry, engineering,…
Energy efficiency has emerged as a central challenge for modern high-performance computing (HPC) systems, where escalating computational demands and architectural complexity have led to significant energy footprints. This paper presents the…
Graphical processing units (GPUs) promise to revolutionize scientific computing in the near future. Already, they allow almost real-time integration of simplified numerical models of cardiac tissue dynamics. However, the integration methods…
Betweenness centrality (BC) is an important graph analytical application for large-scale graphs. While there are many efforts for parallelizing betweenness centrality algorithms on multi-core CPUs and many-core GPUs, in this work, we…
Monitoring electrocardiogram signals is of great significance for the diagnosis of arrhythmias. In recent years, deep learning and convolutional neural networks have been widely used in the classification of cardiac arrhythmias. However,…
Stencil computations are widely used in HPC applications. Today, many HPC platforms use GPUs as accelerators. As a result, understanding how to perform stencil computations fast on GPUs is important. While implementation strategies for…
We describe the use of Graphics Processing Units (GPUs) for speeding up the code NBODY6 which is widely used for direct $N$-body simulations. Over the years, the $N^2$ nature of the direct force calculation has proved a barrier for…
Computational fluid dynamics (CFD) is increasingly used to study blood flows in patient-specific arteries for understanding certain cardiovascular diseases. The techniques work quite well for relatively simple problems, but need…
Developing and redesigning astrophysical, cosmological, and space plasma numerical codes for existing and next-generation accelerators is critical for enabling large-scale simulations. To address these challenges, the SPACE Center of…
High fidelity Computational Fluid Dynamics simulations are generally associated with large computing requirements, which are progressively acute with each new generation of supercomputers. However, significant research efforts are required…
Intracardiac flow patterns are shaped by the coupled motion of the cardiac chambers and heart valves and provide important information about cardiac function. However, clinical flow imaging remains limited by exam times, noise, resolution,…
A new pre-exascale computer cluster has been designed to foster scientific progress and competitive innovation across European research systems, it is called LEONARDO. This paper describes the general architecture of the system and focuses…
Incremental Potential Contact (IPC) is a widely used, robust, and accurate method for simulating complex frictional contact behaviors. However, achieving high efficiency remains a major challenge, particularly as material stiffness…
Electrocardiogram data, one of the most widely available biosignal data, has become increasingly valuable with the emergence of deep learning methods, providing novel insights into cardiovascular diseases and broader health conditions.…
Cardio/cerebrovascular diseases (CVD) have become one of the major health issue in our societies. But recent studies show that the present pathology tests to detect CVD are ineffectual as they do not consider different stages of platelet…
iPIC3D is a widely used massively parallel Particle-in-Cell code for the simulation of space plasmas. However, its current implementation does not support execution on multiple GPUs. In this paper, we describe the porting of iPIC3D particle…
The heart is a vital organ that relies on the orchestrated propagation of electrical stimuli to coordinate each heart beat. Abnormalities in the heart's electrical behaviour can be managed with a cardiac pacemaker. Recently, the closed-loop…