Numerical modeling of cardiac electrophysiology at the cellular scale

Informations projet

MICROCARD

N° de convention de subvention: 955495

DOI 10.3030/955495

Projet clôturé

Date de signature de la CE 18 Decembre 2020

Date de début 1 Avril 2021

Date de fin 30 Septembre 2024

Financé au titre de

• INDUSTRIAL LEADERSHIP - Leadership in enabling and industrial technologies - Information and Communication Technologies (ICT)

Coût total € 5 858 546,25

Contribution de l’UE € 2 777 053,32

Coordonné par

UNIVERSITE DE BORDEAUX
France

CORDIS fournit des liens vers les livrables publics et les publications des projets HORIZON.

Les liens vers les livrables et les publications des projets du 7e PC, ainsi que les liens vers certains types de résultats spécifiques tels que les jeux de données et les logiciels, sont récupérés dynamiquement sur OpenAIRE .

Livrables

Documents, reports (9)

Report on task-based parallelization

Publication of a report on task-based parallelization.

Report on MPI communication optimization

Publication of a report on optimization of MPI communication in the code.

Report on the sustainable roadmap for MICROCARD platform and software

Publication of a report on the sustainable roadmap for the MICROCARD platform and software.

A Software Management Plan for the HPC simulation platform μ CARP

Creation of a Software Management Plan for the HPC simulation platform CARP

Results of the surveys conducted in M18 and M36 on ease of use of the cloud-based web platform

Publication of a report on the results of the surveys conducted in M18 and M36 on ease of use of the cloud-based web platform

Linear solver development and performance assessment report

Publication of a report on the development of linear solvers and an assessment of their performance

Report on High-Performance Data Output

Publication of a report on High-Performance Data Output

Report on automatic checkpoint placement strategy

Publication of a report on automatic checkpoint placement strategy in the code

Report on the implemented DevOps toolchain as a best-practice example

Demonstrators, pilots, prototypes (2)

Linear solver application integration proof

Demonstration of the application of the newly integrated linear solver(s).

Resilient parallelization support

Prototype of the code with task-based parallellization that is resilient to hardware failures.

Open Research Data Pilot (1)

Online publication of the use cases

Posts on the use cases intended for a large audience, on the project website.

Publications

Peer reviewed articles (18)

A comparison of Algebraic Multigrid Bidomain solvers on hybrid CPU–GPU architectures

Auteurs: Edoardo Centofanti, Simone Scacchi
Publié dans: Computer Methods in Applied Mechanics and Engineering, Numéro 423, 2024, Page(s) 116875, ISSN 0045-7825
Éditeur: Elsevier BV
DOI: 10.1016/j.cma.2024.116875

Explicit stabilized multirate methods for the monodomain model in cardiac electrophysiology

Auteurs: Giacomo Rosilho de Souza, Marcus Grote, Simone Pezzuto, Rolf Krause
Publié dans: ESAIM: Mathematical Modelling and Numerical Analysis, 2024, ISSN 2822-7840
Éditeur: edpsciences
DOI: 10.1051/m2an/2024030

A Review of Healthy and Fibrotic Myocardium Microstructure Modeling and Corresponding Intracardiac Electrograms

Auteurs: Sánchez, J.; Loewe, A.
Publié dans: Frontiers in Physiology, 2022, ISSN 1664-042X
Éditeur: Frontiers Research Foundation
DOI: 10.3389/fphys.2022.908069

Scalable and Robust Dual-Primal Newton–Krylov Deluxe Solvers for Cardiac Electrophysiology with Biophysical Ionic Models

Auteurs: Ngoc Mai Monica Huynh; Luca F. Pavarino; Simone Scacchi
Publié dans: Vietnam Journal of Mathematics, Numéro 50, 2022, ISSN 2305-221X
Éditeur: Springer Science + Business Media
DOI: 10.1007/s10013-022-00576-1

Boundary integral formulation of the cell-by-cell model of cardiac electrophysiology

Auteurs: Giacomo Rosilho de Souza, Rolf Krause, Simone Pezzuto
Publié dans: Engineering Analysis with Boundary Elements, Numéro 158, 2023, Page(s) 239-251, ISSN 0955-7997
Éditeur: Pergamon Press Ltd.
DOI: 10.1016/j.enganabound.2023.10.021

Characterization of the pace-and-drive capacity of the human sinoatrial node: A 3D in silico study

Auteurs: Antoine Amsaleg; Jorge Sánchez; Ralf Mikut; Axel Loewe
Publié dans: Biophysical Journal, Numéro 121, 2022, Page(s) 4247–4259, ISSN 0006-3495
Éditeur: Biophysical Society
DOI: 10.1016/j.bpj.2022.10.020

Unexpected impairment of INa underpins reentrant arrhythmias in a knock-in swine model of Timothy syndrome

Auteurs: Andreu Porta-Sánchez, Andrea Mazzanti, Carmen Tarifa, Deni Kukavica, Alessandro Trancuccio, Muhammad Mohsin, Elisa Zanfrini, Andrea Perota, Roberto Duchi, Kevin Hernandez-Lopez, Miguel Eduardo Jáuregui-Abularach, Valerio Pergola, Eugenio Fernandez, Rossana Bongianino, Elisa Tavazzani, Patrick Gambelli, Mirella Memmi, Simone Scacchi, Luca F. Pavarino, Piero Colli Franzone, Giovanni Lentini, David
Publié dans: Nature Cardiovascular Research, Numéro 2, 2023, Page(s) 1291-1309, ISSN 2731-0590
Éditeur: Springer Nature
DOI: 10.1038/s44161-023-00393-w

A Survey of General-purpose Polyhedral Compilers

Auteurs: Arun Thangamani, Vincent Loechner, Stéphane Genaud
Publié dans: ACM Transactions on Architecture and Code Optimization, 2024, ISSN 1544-3566
Éditeur: Association for Computing Machinary, Inc.
DOI: 10.1145/3674735

Epicardial Dispersion of Repolarization Promotes the Onset of Reentry in Brugada Syndrome: A Numerical Simulation Study

Auteurs: Simone Scacchi, Piero Colli Franzone, Luca F. Pavarino, Vincenzo Gionti, Cesare Storti
Publié dans: Bulletin of Mathematical Biology, Numéro 85, 2023, ISSN 0092-8240
Éditeur: Academic Press
DOI: 10.1007/s11538-023-01124-9

The openCARP CDEConcept for and implementation of a sustainable collaborativedevelopment environment for research software

Auteurs: Felix Bach, Jochen Klar, Axel Loewe, Jorge Sánchez, Gunnar Seemann, Yung-Lin Huang, Robert Ulrich
Publié dans: Bausteine Forschungsdatenmanagement, Numéro Nr.1, 2022, ISSN 2626-7489
Éditeur: Marburg: Philipps-Universität
DOI: 10.17192/bfdm.2022.1.8368

À quoi servent les ordinateurs les plus puissants au monde ? Un exemple en cardiologie.

Auteurs: Emmanuelle Saillard; Mark Potse
Publié dans: The Conversation, 2022, ISSN 2431-2134
Éditeur: The Conversation Media Group

The role of pulse timing in cardiac defibrillation

Auteurs: Joshua Steyer, Thomas Lilienkamp, Stefan Luther, Ulrich Parlitz
Publié dans: Frontiers in Network Physiology, Numéro 2, 2023, ISSN 2674-0109
Éditeur: Frontiers
DOI: 10.3389/fnetp.2022.1007585

Attractor selection in nonlinear oscillators by temporary dual-frequency driving

Auteurs: Péter Krähling, Joshua Steyer, Ulrich Parlitz, Ferenc Hegedűs
Publié dans: Nonlinear Dynamics, Numéro 111, 2024, Page(s) 19209-19224, ISSN 0924-090X
Éditeur: Kluwer Academic Publishers
DOI: 10.1007/s11071-023-08855-3

Evaluating computational efforts and physiological resolution of mathematical models of cardiac tissue

Auteurs: Karoline Horgmo Jæger, James D. Trotter, Xing Cai, Hermenegild Arevalo, Aslak Tveito
Publié dans: Scientific Reports, Numéro 14, 2024, ISSN 2045-2322
Éditeur: Nature Publishing Group
DOI: 10.1038/s41598-024-67431-w

Editorial: Atrial Fibrillation: Technology for Diagnosis, Monitoring, and Treatment

Auteurs: Omer Berenfeld, Valentina D. A. Corino, Axel Loewe, Juan Pablo Martínez and Jose F. Rodriguez Matas
Publié dans: Frontiers in Physiology, 2022, ISSN 1664-042X
Éditeur: Frontiers Research Foundation
DOI: 10.3389/fphys.2022.848096

Resource-Efficient Use of Modern Processor Architectures For Numerically Solving Cardiac Ionic Cell Models

Auteurs: Kristian Gregorius Hustad; Xing Cai
Publié dans: Frontiers in Physiology, 2022, ISSN 1664-042X
Éditeur: Frontiers Research Foundation
DOI: 10.3389/fphys.2022.904648

Convergence Analysis of BDDC Preconditioners for Composite DG Discretizations of the Cardiac Cell-By-Cell Model

Auteurs: Ngoc Mai Monica Huynh, Fatemeh Chegini, Luca Franco Pavarino, Martin Weiser, Simone Scacchi
Publié dans: SIAM Journal on Scientific Computing, Numéro 45, 2023, Page(s) A2836-A2857, ISSN 1064-8275
Éditeur: Society for Industrial and Applied Mathematics
DOI: 10.1137/22m1542532

Fibrotic Remodeling during Persistent Atrial Fibrillation: In Silico Investigation of the Role of Calcium for Human Atrial Myofibroblast Electrophysiology

Auteurs: Jorge Sánchez , Beatriz Trenor, Javier Saiz, Olaf Dössel and Axel Loewe
Publié dans: Cells, Numéro 10, 2021, ISSN 2073-4409
Éditeur: MDPI
DOI: 10.3390/cells10112852

Conference proceedings (2)

Parallel nonlinear solvers in computational cardiac electrophysiology

Auteurs: Nicolas Alejandro BARNAFI; Ngoc Mai Monica HUYNH; Luca Franco PAVARINO; Simone SCACCHI
Publié dans: IFAC-PapersOnLine, 2022
Éditeur: Elsevier
DOI: 10.1016/j.ifacol.2022.09.093

Combining Uncore Frequency and Dynamic Power Capping to Improve Power Savings

Auteurs: Amina Guermouche
Publié dans: 2022 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW), 2022, ISBN 978-1-6654-9748-0
Éditeur: IEEE
DOI: 10.1109/ipdpsw55747.2022.00164