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- research-articleJuly 2024
ForCEPSS—A framework for cardiac electrophysiology simulations standardization
- Matthias A.F. Gsell,
- Aurel Neic,
- Martin J. Bishop,
- Karli Gillette,
- Anton J. Prassl,
- Christoph M. Augustin,
- Edward J. Vigmond,
- Gernot Plank
Computer Methods and Programs in Biomedicine (CBIO), Volume 251, Issue Chttps://doi.org/10.1016/j.cmpb.2024.108189Abstract Background and Objective:Simulation of cardiac electrophysiology (CEP) is an important research tool that is increasingly being adopted in industrial and clinical applications. Typical workflows for CEP simulation consist of a sequence of ...
Highlights
- Open-source framework for standardizing cardiac electrophysiology simulations.
- Built upon cardiac electrophysiology modeling community standard software, the openCARP simulator and the carputils framework.
- Simplifies model ...
- research-articleJuly 2024
Experimentally-guided in silico design of engineered heart tissues to improve cardiac electrical function after myocardial infarction
- Ricardo M. Rosales,
- Konstantinos A. Mountris,
- Aida Oliván-Viguera,
- María Pérez-Zabalza,
- Gerardo Cedillo-Servin,
- Olalla Iglesias-García,
- Andrei Hrynevich,
- Miguel Castilho,
- Jos Malda,
- Felipe Prósper,
- Manuel Doblaré,
- Manuel M. Mazo,
- Esther Pueyo
Computers in Biology and Medicine (CBIM), Volume 171, Issue Chttps://doi.org/10.1016/j.compbiomed.2024.108044AbstractEngineered heart tissues (EHTs) built from human induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CMs) showed promising results for cardiac function restoration following myocardial infarction. Nevertheless, human iPSC-CMs have longer ...
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Highlights- We in silico evaluated EHT designs based on in vitro analysis of EHT conductivity and alignment.
- Small elongated hexagonal pores led to better replication of electrical conduction in cardiac tissue.
- More biomimetic EHT conductivity ...
- research-articleApril 2024
Fast creation of data-driven low-order predictive cardiac tissue excitation models from recorded activation patterns
Computers in Biology and Medicine (CBIM), Volume 169, Issue Chttps://doi.org/10.1016/j.compbiomed.2024.107949AbstractExcitable systems give rise to important phenomena such as heat waves, epidemics and cardiac arrhythmias. Understanding, forecasting and controlling such systems requires reliable mathematical representations. For cardiac tissue, computational ...
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- ArticleOctober 2023
A Spatial-Temporally Adaptive PINN Framework for 3D Bi-Ventricular Electrophysiological Simulations and Parameter Inference
Medical Image Computing and Computer Assisted Intervention – MICCAI 2023Pages 163–172https://doi.org/10.1007/978-3-031-43990-2_16AbstractPhysics-informed neural networks (PINNs) is a new paradigm for solving the forward and inverse problems of partial differential equations (PDEs). Its penetration into 3D bi-ventricular electrophysiology (EP) however has been slow, owing to its ...
- research-articleAugust 2023
Evaluation of an open-source pipeline to create patient-specific left atrial models: A reproducibility study
- José Alonso Solís-Lemus,
- Tiffany Baptiste,
- Rosie Barrows,
- Charles Sillett,
- Ali Gharaviri,
- Giulia Raffaele,
- Orod Razeghi,
- Marina Strocchi,
- Iain Sim,
- Irum Kotadia,
- Neil Bodagh,
- Daniel O’Hare,
- Mark O’Neill,
- Steven E. Williams,
- Caroline Roney,
- Steven Niederer
Computers in Biology and Medicine (CBIM), Volume 162, Issue Chttps://doi.org/10.1016/j.compbiomed.2023.107009AbstractThis work presents an open-source software pipeline to create patient-specific left atrial models with fibre orientations and a fibrDEFAULTosis map, suitable for electrophysiology simulations, and quantifies the intra and inter observer ...
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Highlights- New open-source pipeline creates patient-specific left atrial models from CMR scans.
- Inter/intra-operator variability evaluated in study with 100 models.
- Model building time reduced to just 16.7 min.
- Error measurements from ...
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- ArticleJune 2023
On the Accuracy of Eikonal Approximations in Cardiac Electrophysiology in the Presence of Fibrosis
Functional Imaging and Modeling of the HeartPages 137–146https://doi.org/10.1007/978-3-031-35302-4_14AbstractFibrotic tissue is one of the main risk factors for cardiac arrhythmias. It is therefore a key component in computational studies. In this work, we compare the monodomain equation to two eikonal models for cardiac electrophysiology in the presence ...
- research-articleApril 2023
A matrix–free high–order solver for the numerical solution of cardiac electrophysiology
Journal of Computational Physics (JOCP), Volume 478, Issue Chttps://doi.org/10.1016/j.jcp.2023.111984AbstractWe propose a matrix–free solver for the numerical solution of the cardiac electrophysiology model consisting of the monodomain nonlinear reaction–diffusion equation coupled with a system of ordinary differential equations for the ionic species. ...
Graphical abstract Highlights- We propose a matrix–free solver for the numerical solution of cardiac electrophysiology.
- We propose a numerical approximation based on the high–order Spectral Element Method (SEM).
- We combine vectorization with sum–factorization in ...
- research-articleMarch 2023
Assessing the arrhythmogenic risk of engineered heart tissue patches through in silico application on infarcted ventricle models
- Damiano Fassina,
- Caroline M. Costa,
- Martin Bishop,
- Gernot Plank,
- John Whitaker,
- Sian E. Harding,
- Steven A. Niederer
Computers in Biology and Medicine (CBIM), Volume 154, Issue Chttps://doi.org/10.1016/j.compbiomed.2023.106550Abstract BackgroundPost myocardial infarction (MI) ventricles contain fibrotic tissue and may have disrupted electrical properties, both of which predispose to an increased risk of life-threatening arrhythmias. Application of ...
Highlights
- Developed pipeline for in silico study of engineered heart tissue in infarcted ventricle models.
- research-articleOctober 2022
Physics-informed neural networks to learn cardiac fiber orientation from multiple electroanatomical maps
- Carlos Ruiz Herrera ,
- Thomas Grandits,
- Gernot Plank,
- Paris Perdikaris,
- Francisco Sahli Costabal,
- Simone Pezzuto
Engineering with Computers (ENGC), Volume 38, Issue 5Pages 3957–3973https://doi.org/10.1007/s00366-022-01709-3AbstractWe propose FiberNet, a method to estimate in-vivo the cardiac fiber architecture of the human atria from multiple catheter recordings of the electrical activation. Cardiac fibers play a central role in the electro-mechanical function of the heart, ...
- ArticleSeptember 2022
Few-Shot Generation of Personalized Neural Surrogates for Cardiac Simulation via Bayesian Meta-learning
- Xiajun Jiang,
- Zhiyuan Li,
- Ryan Missel,
- Md Shakil Zaman,
- Brian Zenger,
- Wilson W. Good,
- Rob S. MacLeod,
- John L. Sapp,
- Linwei Wang
Medical Image Computing and Computer Assisted Intervention – MICCAI 2022Pages 46–56https://doi.org/10.1007/978-3-031-16452-1_5AbstractClinical adoption of personalized virtual heart simulations faces challenges in model personalization and expensive computation. While an ideal solution is an efficient neural surrogate that at the same time is personalized to an individual ...
- research-articleJune 2022
A comparative study of fully implicit staggered and monolithic solution methods. Part I: Coupled bidomain equations of cardiac electrophysiology
Journal of Computational and Applied Mathematics (JCAM), Volume 407, Issue Chttps://doi.org/10.1016/j.cam.2021.114021AbstractThis manuscript presents an extensive comparative analysis between a staggered and a monolithic solution technique for the bidomain equations of cardiac electrophysiology in the context of finite element method. For the monolithic ...
- research-articleJune 2022
- chapterMarch 2022
A Comprehensive Comparison of GPU Implementations of Cardiac Electrophysiology Models
- Abouzar Kaboudian,
- Hector Augusto Velasco-Perez,
- Shahriar Iravanian,
- Yohannes Shiferaw,
- Elizabeth M. Cherry,
- Flavio H. Fenton
From Reactive Systems to Cyber-Physical SystemsPages 9–34https://doi.org/10.1007/978-3-030-31514-6_2AbstractCardiac disease is the leading cause of death in developed countries, and arrhythmias, which are disorders in the regular generation and propagation of electrical waves that trigger contraction, form a major class of heart diseases. Computational ...
- research-articleFebruary 2022
Determining anatomical and electrophysiological detail requirements for computational ventricular models of porcine myocardial infarction
- Caroline Mendonca Costa,
- Philip Gemmell,
- Mark K. Elliott,
- John Whitaker,
- Fernando O. Campos,
- Marina Strocchi,
- Aurel Neic,
- Karli Gillette,
- Edward Vigmond,
- Gernot Plank,
- Reza Razavi,
- Mark O'Neill,
- Christopher A. Rinaldi,
- Martin J. Bishop
Computers in Biology and Medicine (CBIM), Volume 141, Issue Chttps://doi.org/10.1016/j.compbiomed.2021.105061Abstract BackgroundComputational models of the heart built from cardiac MRI and electrophysiology (EP) data have shown promise for predicting the risk of and ablation targets for myocardial infarction (MI) related ventricular ...
Highlights- Detailed scar morphology is required to simulate infarct-related arrhythmia.
- ...
- research-articleDecember 2021
Controllability and state feedback control of a cardiac ionic cell model
Computers in Biology and Medicine (CBIM), Volume 139, Issue Chttps://doi.org/10.1016/j.compbiomed.2021.104909AbstractA phenomenon called alternans, which is a beat-to-beat alternation in action potential (AP) duration, sometimes precedes fatal cardiac arrhythmias. Alternans-suppressing electrical stimulus protocols are often represented as ...
Highlights- Controllability properties were reported for an ionic model of a cardiomyocyte.
- ArticleJuly 2021
Design Considerations for Interacting and Navigating with 2 Dimensional and 3 Dimensional Medical Images in Virtual, Augmented and Mixed Reality Medical Applications
- Jennifer N. Avari Silva,
- Michael K. Southworth,
- Christopher M. Andrews,
- Mary Beth Privitera,
- Alexander B. Henry,
- Jonathan R. Silva
AbstractThe extended realities, including virtual, augmented, and mixed realities (VAMR) have recently experienced significant hardware improvement resulting in an expansion in medical applications. These applications can be classified by the target end ...
- research-articleJuly 2021
The electrocardiographic forward problem: A benchmark study
Computers in Biology and Medicine (CBIM), Volume 134, Issue Chttps://doi.org/10.1016/j.compbiomed.2021.104476Abstract BackgroundElectrocardiographic forward problems are crucial components for noninvasive electrocardiographic imaging (ECGI) that compute torso potentials from cardiac source measurements. Forward problems have few sources of ...
Highlights- The electrocardiographic forward problem is an essential component of electrocardiographic imaging.
- ArticleJune 2021
Spiral Waves Generation Using an Eikonal-Reaction Cardiac Electrophysiology Model
Functional Imaging and Modeling of the HeartPages 523–530https://doi.org/10.1007/978-3-030-78710-3_50AbstractAim: Computer models enabled the study of the fundamental mechanisms responsible for arrhythmias and have the potential of optimizing the clinical procedure for an individual patients pathology. The model complexity and the computational costs ...
- ArticleJune 2021
The Effect of Modeling Assumptions on the ECG in Monodomain and Bidomain Simulations
Functional Imaging and Modeling of the HeartPages 503–514https://doi.org/10.1007/978-3-030-78710-3_48AbstractComputing a physiologically accurate electrocardiogram (ECG) is one of the key outcomes of cardiac electrophysiology (EP) simulations. Indeed, the simulated ECG serves as a validation, may be the target for optimization in inverse EP problems, and ...
- research-articleDecember 2020
Characterizing the transient electrocardiographic signature of ischemic stress using Laplacian Eigenmaps for dimensionality reduction
Computers in Biology and Medicine (CBIM), Volume 127, Issue Chttps://doi.org/10.1016/j.compbiomed.2020.104059Abstract ObjectiveDespite a long history of ECG-based monitoring of acute ischemia quantified by several widely used clinical markers, the diagnostic performance of these metrics is not yet satisfactory, motivating a data-driven ...
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Highlights- A novel Laplacian eigenmap (LE) metric was evaluated and determined to be a robust tool for early detection of ischemia.