Literature DB >> 21969679

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

Steven A Niederer1, Eric Kerfoot, Alan P Benson, Miguel O Bernabeu, Olivier Bernus, Chris Bradley, Elizabeth M Cherry, Richard Clayton, Flavio H Fenton, Alan Garny, Elvio Heidenreich, Sander Land, Mary Maleckar, Pras Pathmanathan, Gernot Plank, José F Rodríguez, Ishani Roy, Frank B Sachse, Gunnar Seemann, Ola Skavhaug, Nic P Smith.   

Abstract

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.

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Year:  2011        PMID: 21969679      PMCID: PMC3263775          DOI: 10.1098/rsta.2011.0139

Source DB:  PubMed          Journal:  Philos Trans A Math Phys Eng Sci        ISSN: 1364-503X            Impact factor:   4.226


  34 in total

Review 1.  Computational models of normal and abnormal action potential propagation in cardiac tissue: linking experimental and clinical cardiology.

Authors:  R H Clayton
Journal:  Physiol Meas       Date:  2001-08       Impact factor: 2.833

2.  Propagation of normal beats and re-entry in a computational model of ventricular cardiac tissue with regional differences in action potential shape and duration.

Authors:  Richard H Clayton; Arun V Holden
Journal:  Prog Biophys Mol Biol       Date:  2004 Jun-Jul       Impact factor: 3.667

3.  A vision and strategy for the virtual physiological human in 2010 and beyond.

Authors:  Peter Hunter; Peter V Coveney; Bernard de Bono; Vanessa Diaz; John Fenner; Alejandro F Frangi; Peter Harris; Rod Hose; Peter Kohl; Pat Lawford; Keith McCormack; Miriam Mendes; Stig Omholt; Alfio Quarteroni; John Skår; Jesper Tegner; S Randall Thomas; Ioannis Tollis; Ioannis Tsamardinos; Johannes H G M van Beek; Marco Viceconti
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2010-06-13       Impact factor: 4.226

4.  Adaptive macro finite elements for the numerical solution of monodomain equations in cardiac electrophysiology.

Authors:  Elvio A Heidenreich; José M Ferrero; Manuel Doblaré; José F Rodríguez
Journal:  Ann Biomed Eng       Date:  2010-03-18       Impact factor: 3.934

5.  On the computational complexity of the bidomain and the monodomain models of electrophysiology.

Authors:  Joakim Sundnes; Bjørn Fredrik Nielsen; Kent Andre Mardal; Xing Cai; Glenn Terje Lines; Aslak Tveito
Journal:  Ann Biomed Eng       Date:  2006-05-16       Impact factor: 3.934

6.  Simulation of cardiac electrophysiology on next-generation high-performance computers.

Authors:  Rafel Bordas; Bruno Carpentieri; Giorgio Fotia; Fabio Maggio; Ross Nobes; Joe Pitt-Francis; James Southern
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2009-05-28       Impact factor: 4.226

7.  Efficient computational methods for strongly coupled cardiac electromechanics.

Authors:  Sander Land; Steven A Niederer; Nicolas P Smith
Journal:  IEEE Trans Biomed Eng       Date:  2011-02-07       Impact factor: 4.538

Review 8.  Computational models of the heart and their use in assessing the actions of drugs.

Authors:  Denis Noble
Journal:  J Pharmacol Sci       Date:  2008-06       Impact factor: 3.337

9.  Minimal model for human ventricular action potentials in tissue.

Authors:  Alfonso Bueno-Orovio; Elizabeth M Cherry; Flavio H Fenton
Journal:  J Theor Biol       Date:  2008-04-08       Impact factor: 2.691

10.  CellML metadata standards, associated tools and repositories.

Authors:  Daniel A Beard; Randall Britten; Mike T Cooling; Alan Garny; Matt D B Halstead; Peter J Hunter; James Lawson; Catherine M Lloyd; Justin Marsh; Andrew Miller; David P Nickerson; Poul M F Nielsen; Taishin Nomura; Shankar Subramanium; Sarala M Wimalaratne; Tommy Yu
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2009-05-28       Impact factor: 4.226

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  72 in total

1.  Share and enjoy: anatomical models database--generating and sharing cardiovascular model data using web services.

Authors:  Eric Kerfoot; Pablo Lamata; Steve Niederer; Rod Hose; Jos Spaan; Nic Smith
Journal:  Med Biol Eng Comput       Date:  2013-02-23       Impact factor: 2.602

2.  Sensitivity analysis of an electrophysiology model for the left ventricle.

Authors:  Giulio Del Corso; Roberto Verzicco; Francesco Viola
Journal:  J R Soc Interface       Date:  2020-10-28       Impact factor: 4.118

3.  Incorporating inductances in tissue-scale models of cardiac electrophysiology.

Authors:  Simone Rossi; Boyce E Griffith
Journal:  Chaos       Date:  2017-09       Impact factor: 3.642

4.  Semi-implicit Non-conforming Finite-Element Schemes for Cardiac Electrophysiology: A Framework for Mesh-Coarsening Heart Simulations.

Authors:  Javiera Jilberto; Daniel E Hurtado
Journal:  Front Physiol       Date:  2018-10-30       Impact factor: 4.566

Review 5.  Atlas-Based Computational Analysis of Heart Shape and Function in Congenital Heart Disease.

Authors:  Kathleen Gilbert; Nickolas Forsch; Sanjeet Hegde; Charlene Mauger; Jeffrey H Omens; James C Perry; Beau Pontré; Avan Suinesiaputra; Alistair A Young; Andrew D McCulloch
Journal:  J Cardiovasc Transl Res       Date:  2018-01-02       Impact factor: 4.132

Review 6.  An audit of uncertainty in multi-scale cardiac electrophysiology models.

Authors:  Richard H Clayton; Yasser Aboelkassem; Chris D Cantwell; Cesare Corrado; Tammo Delhaas; Wouter Huberts; Chon Lok Lei; Haibo Ni; Alexander V Panfilov; Caroline Roney; Rodrigo Weber Dos Santos
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2020-05-25       Impact factor: 4.226

7.  Predicting critical drug concentrations and torsadogenic risk using a multiscale exposure-response simulator.

Authors:  Francisco Sahli Costabal; Jiang Yao; Anna Sher; Ellen Kuhl
Journal:  Prog Biophys Mol Biol       Date:  2018-10-26       Impact factor: 3.667

Review 8.  Cardiac image modelling: Breadth and depth in heart disease.

Authors:  Avan Suinesiaputra; Andrew D McCulloch; Martyn P Nash; Beau Pontre; Alistair A Young
Journal:  Med Image Anal       Date:  2016-06-17       Impact factor: 8.545

9.  Generating Purkinje networks in the human heart.

Authors:  Francisco Sahli Costabal; Daniel E Hurtado; Ellen Kuhl
Journal:  J Biomech       Date:  2015-12-22       Impact factor: 2.712

Review 10.  Using physiologically based models for clinical translation: predictive modelling, data interpretation or something in-between?

Authors:  Steven A Niederer; Nic P Smith
Journal:  J Physiol       Date:  2016-07-03       Impact factor: 5.182

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