26
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      Scalable and Accurate ECG Simulation for Reaction-Diffusion Models of the Human Heart

      research-article

      Read this article at

      Bookmark
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          Realistic electrocardiogram (ECG) simulation with numerical models is important for research linking cellular and molecular physiology to clinically observable signals, and crucial for patient tailoring of numerical heart models. However, ECG simulation with a realistic torso model is computationally much harder than simulation of cardiac activity itself, so that many studies with sophisticated heart models have resorted to crude approximations of the ECG. This paper shows how the classical concept of electrocardiographic lead fields can be used for an ECG simulation method that matches the realism of modern heart models. The accuracy and resource requirements were compared to those of a full-torso solution for the potential and scaling was tested up to 14,336 cores with a heart model consisting of 11 million nodes. Reference ECGs were computed on a 3.3 billion-node heart-torso mesh at 0.2 mm resolution. The results show that the lead-field method is more efficient than a full-torso solution when the number of simulated samples is larger than the number of computed ECG leads. While the initial computation of the lead fields remains a hard and poorly scalable problem, the ECG computation itself scales almost perfectly and, even for several hundreds of ECG leads, takes much less time than the underlying simulation of cardiac activity.

          Related collections

          Most cited references51

          • Record: found
          • Abstract: found
          • Article: not found

          Verification of cardiac tissue electrophysiology simulators using an N-version benchmark.

          Ongoing developments in cardiac modelling have resulted, in particular, in the development of advanced and increasingly complex computational frameworks for simulating cardiac tissue electrophysiology. The goal of these simulations is often to represent the detailed physiology and pathologies of the heart using codes that exploit the computational potential of high-performance computing architectures. These developments have rapidly progressed the simulation capacity of cardiac virtual physiological human style models; however, they have also made it increasingly challenging to verify that a given code provides a faithful representation of the purported governing equations and corresponding solution techniques. This study provides the first cardiac tissue electrophysiology simulation benchmark to allow these codes to be verified. The benchmark was successfully evaluated on 11 simulation platforms to generate a consensus gold-standard converged solution. The benchmark definition in combination with the gold-standard solution can now be used to verify new simulation codes and numerical methods in the future.
            Bookmark
            • Record: found
            • Abstract: found
            • Article: not found

            Ionic current basis of electrocardiographic waveforms: a model study.

            Body surface electrocardiograms and electrograms recorded from the surfaces of the heart are the basis for diagnosis and treatment of cardiac electrophysiological disorders and arrhythmias. Given recent advances in understanding the molecular mechanisms of arrhythmia, it is important to relate these electrocardiographic waveforms to cellular electrophysiological processes. This modeling study establishes the following principles: (1) voltage gradients created by heterogeneities of the slow-delayed rectifier (I(Ks)) and transient outward (I(to)) potassium current inscribe the T wave and J wave, respectively; T-wave polarity and width are strongly influenced by the degree of intercellular coupling through gap-junctions. (2) Changes in [K+]o modulate the T wave through their effect on the rapid-delayed rectifier, I(Kr). (3) Alterations of I(Ks), I(Kr), and I(Na) (fast sodium current) in long-QT syndrome (LQT1, LQT2, and LQT3, respectively) are reflected in characteristic QT-interval and T-wave changes; LQT1 prolongs QT without widening the T wave. (4) Accelerated inactivation of I(Na) on the background of large epicardial I(to) results in ST elevation (Brugada phenotype) that reflects the degree of severity. (5) Activation of the ATP-sensitive potassium current, I(K(ATP)), is sufficient to cause ST elevation during acute ischemia. These principles provide a mechanistic cellular basis for interpretation of electrocardiographic waveforms.
              Bookmark
              • Record: found
              • Abstract: found
              • Article: found
              Is Open Access

              Simulating Human Cardiac Electrophysiology on Clinical Time-Scales

              In this study, the feasibility of conducting in silico experiments in near-realtime with anatomically realistic, biophysically detailed models of human cardiac electrophysiology is demonstrated using a current national high-performance computing facility. The required performance is achieved by integrating and optimizing load balancing and parallel I/O, which lead to strongly scalable simulations up to 16,384 compute cores. This degree of parallelization enables computer simulations of human cardiac electrophysiology at 240 times slower than real time and activation times can be simulated in approximately 1 min. This unprecedented speed suffices requirements for introducing in silico experimentation into a clinical workflow.
                Bookmark

                Author and article information

                Contributors
                Journal
                Front Physiol
                Front Physiol
                Front. Physiol.
                Frontiers in Physiology
                Frontiers Media S.A.
                1664-042X
                20 April 2018
                2018
                : 9
                : 370
                Affiliations
                [1] 1CARMEN Research Team, Inria Bordeaux Sud-Ouest , Talence, France
                [2] 2Institut de Mathématiques de Bordeaux, UMR 5251, Université de Bordeaux , Talence, France
                [3] 3IHU Liryc, Electrophysiology and Heart Modeling Institute, Foundation Bordeaux Université , Pessac-Bordeaux, France
                Author notes

                Edited by: Mariano Vázquez, Barcelona Supercomputing Center, Spain

                Reviewed by: Arun V. Holden, University of Leeds, United Kingdom; Mohammad Hasan Imam, American International University-Bangladesh, Bangladesh

                *Correspondence: Mark Potse mark@ 123456potse.nl

                This article was submitted to Computational Physiology and Medicine, a section of the journal Frontiers in Physiology

                Article
                10.3389/fphys.2018.00370
                5920200
                29731720
                aa32da66-4a78-4b6e-ac10-1beb8dd98bd9
                Copyright © 2018 Potse.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 14 January 2018
                : 27 March 2018
                Page count
                Figures: 8, Tables: 2, Equations: 14, References: 91, Pages: 14, Words: 10326
                Funding
                Funded by: Agence Nationale de la Recherche 10.13039/501100001665
                Award ID: ANR-10-IAHU04-LIRYC
                Categories
                Physiology
                Original Research

                Anatomy & Physiology
                numerical modeling,electrocardiogram,high-performance computing,reaction-diffusion model,bidomain model,lead fields

                Comments

                Comment on this article