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MICROCARD Publications

journal articles

  1. Nicolas Alejandro Barnafi, Ngoc Monica Mai Huynh, Luca Franco Pavarino, and Simone Scacchi. Parallel nonlinear solvers in computational cardiac electrophysiology..
    IFAC-PapersOnLine, vol. 55, no. 20, pp. 187–192, 2022. [link]  [bibtex] 

     

    @article{barnafi_IFAC-Papers_2022,
     author = {Barnafi, Nicolas Alejandro  and Huynh, Ngoc Monica Mai and Pavarino, Luca Franco and Scacchi, Simone},
     doi = {10.1016/j.ifacol.2022.09.093},
     journal = {IFAC-PapersOnLine},
     number = {20},
     pages = {187-192},
     title = {Parallel nonlinear solvers in computational cardiac electrophysiology.},
     url = {https://dx.doi.org/10.1016/j.ifacol.2022.09.093},
     volume = {55},
     year = {2022}
    }
  2. Ngoc Monica Mai Huynh, Luca Franco Pavarino, and Simone Scacchi. Scalable and Robust Dual-Primal Newton–Krylov Deluxe Solvers for Cardiac Electrophysiology with Biophysical Ionic Models.
    Vietnam Journal of Mathematics, vol. 50, pp. 1029–1052, 2022. [link]  [bibtex] 

     

    @article{Huynh_VJOM_2022,
     author = {Huynh, Ngoc Monica Mai and Pavarino, Luca Franco and Scacchi, Simone},
     doi = {10.1007/s10013-022-00576-1},
     journal = {Vietnam Journal of Mathematics},
     pages = {1029–1052},
     title = {Scalable and Robust Dual-Primal {N}ewton–{K}rylov Deluxe
    Solvers for Cardiac Electrophysiology with Biophysical Ionic Models},
     url = {https://dx.doi.org/10.1007/s10013-022-00576-1},
     volume = {50},
     year = {2022}
    }
  3. Antoine Amsaleg, Jorge Sánchez, Ralf Mikut, and Axel Loewe. Characterization of the Pace-and-Drive Capacity of the Human Sinoatrial Node: a 3D in silico Study.
    Biophysical Journal, vol. 121, no. 22, pp. 4247–4259, 2022. [link]  [bibtex] 

     

    @article{Amsaleg-unknown-ID17996,
     author = {Amsaleg, Antoine and Sánchez, Jorge and Mikut, Ralf and Loewe, Axel},
     doi = {10.1016/j.bpj.2022.10.020},
     journal = {Biophysical Journal},
     number = {22},
     pages = {4247-4259},
     title = {Characterization of the Pace-and-Drive Capacity of the Human
    Sinoatrial Node: a 3D in silico Study},
     url = {https://dx.doi.org/10.1016/j.bpj.2022.10.020},
     volume = {121},
     year = {2022}
    }
  4. Jorge Sánchez and Axel Loewe. A Review of Healthy and Fibrotic Myocardium Microstructure Modeling and Corresponding Intracardiac Electrograms.
    Frontiers in Physiology, vol. 13, 5 2022. [link]  [bibtex] 

     

    @article{Sanchez-2022-908069,
     author = {Sánchez, Jorge and Loewe, Axel},
     doi = {10.3389/fphys.2022.908069},
     journal = {Frontiers in Physiology},
     month = {5},
     title = {A Review of Healthy and Fibrotic Myocardium Microstructure
    Modeling and Corresponding Intracardiac Electrograms},
     url = {https://dx.doi.org/10.3389/fphys.2022.908069},
     volume = {13},
     year = {2022}
    }
  5. Kristian Gregorius Hustad and Xing Cai. Resource-Efficient Use of Modern Processor Architectures For Numerically Solving Cardiac Ionic Cell Models.
    Frontiers in Physiology, vol. 13, article nr. 904648, 2022. [link]  [bibtex] 

     

    @article{Hustad2022_frontiers,
     article_number = {904648},
     author = {Hustad, Kristian Gregorius and Cai, Xing},
     doi = {10.3389/fphys.2022.904648},
     journal = {Frontiers in Physiology},
     pages = {904648},
     title = {Resource-Efficient Use of Modern Processor Architectures
    For Numerically Solving Cardiac Ionic Cell Models},
     url = {https://dx.doi.org/10.3389/fphys.2022.904648},
     volume = {13},
     year = {2022}
    }
  6. Omer Berenfeld, Valentina Corino, Axel Loewe, Juan Pablo Martínez, and Jose F Rodriguez Matas. Editorial: Atrial Fibrillation - Technology for Diagnosis, Monitoring, and Treatment.
    Frontiers in Physiology, vol. 13, article nr. 848096, 2022. [link]  [bibtex] 

     

    @article{EditorialAF_Frontiers,
     article_number = {848096},
     author = {Omer Berenfeld and Valentina Corino and Axel Loewe and Juan Pablo Martínez and Jose F Rodriguez Matas},
     doi = {10.3389/fphys.2022.848096},
     journal = {Frontiers in Physiology},
     pages = {848096},
     title = {Editorial: {A}trial Fibrillation - Technology for Diagnosis, Monitoring, and Treatment},
     url = {https://dx.doi.org/10.3389/fphys.2022.848096},
     volume = {13},
     year = {2022}
    }
  7. Felix Bach, Jochen Klar, Axel Loewe, Jorge Sánchez, Gunnar Seemann, Yung-Lin Huang, and Robert Ulrich. The openCARP CDE – Concept for and implementation of a sustainable collaborative development environment for research software.
    Bausteine Forschungsdatenmanagement, vol. 2022, no. 1, 2022. [link]  [bibtex] 

     

    @article{cde-fdm,
     author = {Bach, Felix and Klar, Jochen and Loewe, Axel and Sánchez, Jorge and Seemann, Gunnar and Huang, Yung-Lin and Ulrich, Robert},
     doi = {10.17192/bfdm.2022.1.8368},
     journal = {Bausteine Forschungsdatenmanagement},
     number = {1},
     title = {The {openCARP CDE} -- Concept for and implementation of a sustainable collaborative development environment for research software},
     url = {https://dx.doi.org/10.17192/bfdm.2022.1.8368},
     volume = {2022},
     year = {2022}
    }
  8. Jorge Sánchez, Beatriz Trenor, Javier Saiz, Olaf Dössel, and Axel Loewe. Fibrotic Remodeling during Persistent Atrial Fibrillation: In Silico Investigation of the Role of Calcium for Human Atrial Myofibroblast Electrophysiology.
    Cells, vol. 10, pp. 2852, 2021. [link]  [bibtex] 

     

    @article{sanchez-myofib,
     author = {Sánchez, Jorge and Trenor, Beatriz and Saiz, Javier and Dössel, Olaf and Loewe, Axel},
     doi = {10.3390/cells10112852},
     journal = {Cells},
     pages = {2852},
     title = {Fibrotic Remodeling during Persistent Atrial Fibrillation: In Silico Investigation of the Role of Calcium for Human Atrial Myofibroblast Electrophysiology},
     url = {https://dx.doi.org/10.3390/cells10112852},
     volume = {10},
     year = {2021}
    }

conference articles

  1. Amina Guermouche. Combining Uncore Frequency and Dynamic Power Capping to Improve Power Savings.
    IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW), pp. 1028–1037, 2022. [link]  [bibtex] 

     

    @inproceedings{guermouche:ipdpsw22,
     author = {Guermouche, Amina},
     booktitle = {IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW)},
     doi = {10.1109/IPDPSW55747.2022.00164},
     pages = {1028-1037},
     title = {Combining Uncore Frequency and Dynamic Power Capping to Improve Power Savings},
     url = {https://dx.doi.org/10.1109/IPDPSW55747.2022.00164},
     year = {2022}
    }
  2. Jorge Sánchez and Axel Loewe. Mechanical Consequences of Electrical Remodeling due to Persistent Atrial Fibrillation: a Cellular Level Sensitivity Analysis.
    Computing in Cardiology, vol. 49, Tampere, Finland, September 2022. [bibtex] 

     

    @inproceedings{JorgeCinC_2022,
     address = {Tampere, Finland},
     author = {Sánchez, Jorge and Loewe, Axel},
     booktitle = {Computing in Cardiology},
     month = {September},
     title = {Mechanical Consequences of Electrical Remodeling due to Persistent Atrial Fibrillation: a Cellular Level Sensitivity Analysis },
     volume = {49},
     year = {2022}
    }
  3. Nicolas Alejandro Barnafi, Ngoc Monica Mai Huynh, Luca Franco Pavarino, and Simone Scacchi. Parallel nonlinear solvers in computational cardiac electrophysiology..
    IFAC-PapersOnLine, Vienna, Austria, July 2022. [bibtex] 

     

    @inproceedings{huynh_2022,
     address = {Vienna, Austria},
     author = {Barnafi, Nicolas Alejandro  and Huynh, Ngoc Monica Mai and Pavarino, Luca Franco and Scacchi, Simone},
     booktitle = {IFAC-PapersOnLine},
     month = {July},
     title = {Parallel nonlinear solvers in computational cardiac electrophysiology.},
     year = {2022}
    }
  4. Mark Potse, Luca Cirrottola, and Algiane Froehly. A practical algorithm to build geometric models of cardiac muscle structure.
    8th European Congress on Computational Methods in Applied Sciences and Engineering (ECCOMAS), Oslo, Norway, June 2022. [link]  [bibtex] 

     

    @inproceedings{potse-eccomas22,
     address = {Oslo, Norway},
     author = {Potse, Mark and Cirrottola, Luca and Froehly, Algiane},
     booktitle = {8th European Congress on Computational Methods in
    Applied Sciences and Engineering (ECCOMAS)},
     month = {June},
     title = {A practical algorithm to build geometric models of
    cardiac muscle structure},
     url = {https://www.eccomas2022.org/admin/files/filepaper/p488.pdf},
     year = {2022}
    }
  5. Simone Pezzuto, Giacomo Rosilho de Souza, and Rolf Krause. Boundary integral discretization of the cell-to-cell bidomain model of cardiac electrophysiology.
    8th European Congress on Computational Methods in Applied Sciences and Engineering (ECCOMAS), Oslo, Norway, June 2022. [link]  [bibtex] 

     

    @inproceedings{pezzuto-eccomas22,
     address = {Oslo, Norway},
     author = {Pezzuto, Simone and Rosilho de Souza, Giacomo and Krause, Rolf},
     booktitle = {8th European Congress on Computational Methods in
    Applied Sciences and Engineering (ECCOMAS)},
     month = {June},
     title = {Boundary integral discretization of the cell-to-cell
    bidomain model of cardiac electrophysiology},
     url = {https://www.eccomas2022.org/admin/files/fileabstract/a692.pdf},
     year = {2022}
    }
  6. Martin Weiser and Fatemeh Chegini. Adaptive multirate integration of cardiac electrophysiology with spectral deferred correction methods.
    7th International Conference on Computational and Mathematical Biomedical Engineering (CMBE22), pp. 528–531, 2022. [bibtex] 

     

    @inproceedings{WeiserChegini2022,
     author = {Weiser, Martin and Chegini, Fatemeh},
     booktitle = {7th International Conference on Computational and
    Mathematical Biomedical Engineering (CMBE22)},
     pages = {528--531},
     title = {Adaptive multirate integration of cardiac electrophysiology with spectral deferred correction methods},
     year = {2022}
    }
  7. Giacomo Rosilho de Souza, Simone Pezzuto, and Rolf Krause. Parallel-in-time multirate explicit stabilized method for the monodomain model in cardiac electrophysiology.
    7th International Conference on Computational and Mathematical Biomedical Engineering (CMBE22), Milan, Italy, June 2022. [bibtex] 

     

    @inproceedings{rosilhodesouza-cmbe22,
     address = {Milan, Italy},
     author = {Rosilho de Souza, Giacomo and Pezzuto, Simone and Krause, Rolf},
     booktitle = {7th International Conference on Computational and
    Mathematical Biomedical Engineering (CMBE22)},
     month = {June},
     organization = {CMBE},
     title = {Parallel-in-time multirate explicit stabilized method
    for the monodomain model in cardiac electrophysiology},
     year = {2022}
    }
  8. Mark Potse. Microscale cardiac electrophysiology on exascale supercomputers.
    SIAM Conference on Parallel Processing for Scientific Computing (PP22), Seattle, WA, USA, February 2022. [bibtex] 

     

    @inproceedings{potse-pp22,
     address = {Seattle, WA, USA},
     author = {Potse, Mark},
     booktitle = {SIAM Conference on Parallel Processing for Scientific Computing (PP22)},
     month = {February},
     organization = {SIAM},
     title = {Microscale cardiac electrophysiology on exascale supercomputers},
     year = {2022}
    }

invited lectures

  1. Mark Potse. The MICROCARD project and gender.
    #RESET your project with gender, 15 November 2022. (webinar[link]  [bibtex] 

     

    @lecture{potse-RESET3,
     author = {Potse, Mark},
     booktitle = {#RESET your project with gender},
     month = {November},
     title = {The {MICROCARD} project and gender},
     url = {https://wereset.eu/newsroom/news/webinar-reset-your-research-project-with-gender/},
     year = {2022}
    }
  2. Yves Coudière and Zeina Chehade. Towards finite volume methods for the cardiac micromodel.
    Workshop on Discrete Duality Finite Volume Method and Applications, Marseille, France, October 2022. [bibtex] 

     

    @lecture{coudiere22cirm,
     address = {Marseille, France},
     author = {Coudi\`ere, Yves and Chehade, Zeina},
     booktitle = {Workshop on Discrete Duality Finite Volume Method and Applications},
     month = {October},
     title = {Towards finite volume methods for the cardiac micromodel},
     year = {2022}
    }
  3. Mark Potse. Modeling the heart, cell by cell.
    HiPEAC 2022, Budapest, June 2022. (HeLP-DC Workshop on Heterogeneous and Low-Power Data Center technologies[bibtex] 

     

    @lecture{potse22hipeac,
     address = {Budapest},
     author = {Potse, Mark},
     booktitle = {HiPEAC 2022},
     month = {June},
     title = {Modeling the heart, cell by cell},
     year = {2022}
    }
  4. Mark Potse. MICROCARD: modeling the heart cell by cell.
    TERATEC Forum, Paris, June 2022. (workshop HPC Technologies and Health[link]  [bibtex] 

     

    @lecture{potse22teratec,
     address = {Paris},
     author = {Potse, Mark},
     booktitle = {TERATEC Forum},
     month = {June},
     title = {MICROCARD: modeling the heart cell by cell},
     url = {https://teratec.eu/gb/forum/atelier_2.html},
     year = {2022}
    }
  5. Terry Cojean, Fritz Göbel, and Marie Houillon. Porting the openCARP cardiac electrophysiology simulation framework to GPU architectures.
    Fifth ISC Workshop on HPC Applications in Precision Medecine, Hamburg, Germany, 2 June 2022. [bibtex] 

     

    @lecture{2022_OpenCARP_Ginkgo_HAPM_Workshop,
     address = {Hamburg, Germany},
     author = {Cojean, Terry and Göbel, Fritz and Houillon, Marie},
     month = {June},
     publisher = {Fifth ISC Workshop on HPC Applications in Precision Medecine},
     title = {Porting the openCARP cardiac electrophysiology simulation framework to GPU architectures},
     year = {2022}
    }
  6. Axel Loewe. Computational Cardiac Modeling – Synergies with Machine Learning.
    Annual Meeting of the German Cardiac Society, Mannheim, Germany, 22 April 2022. [bibtex] 

     

    @lecture{loewe-DGK22,
     address = {Mannheim, Germany},
     author = {Axel Loewe},
     month = {April},
     publisher = {Annual Meeting of the German Cardiac Society},
     title = {Computational Cardiac Modeling -- Synergies with Machine Learning},
     year = {2022}
    }
  7. Mark Potse. MICROCARD: Numerical modeling of cardiac electrophysiology at the cellular scale.
    OpenCARP Contributor Meeting, online, 14 March 2022. [bibtex] 

     

    @lecture{potse-openCarpCM22,
     address = {online},
     author = {Mark Potse},
     month = {March},
     publisher = {OpenCARP Contributor Meeting},
     title = {MICROCARD: Numerical modeling of cardiac electrophysiology at the cellular scale},
     year = {2022}
    }
  8. Vincent Loechner. Modern Compiler Technology to Optimize Code From Ionic Models.
    Colloquium of the ITI IRMIA++, Université de Strasbourg, France, 17 March 2022. [bibtex] 

     

    @lecture{loechner-IRMIA22,
     address = {Université de Strasbourg, France},
     author = {Vincent Loechner},
     month = {March},
     publisher = {Colloquium of the ITI IRMIA++},
     title = {Modern Compiler Technology to Optimize Code From Ionic Models},
     year = {2022}
    }
  9. Mark Potse. The MICROCARD Project.
    IHU Liryc, Université de Bordeaux, France, 22 February 2021. [bibtex] 

     

    @lecture{potse-Liryc21,
     address = {Université de Bordeaux, France},
     author = {Mark Potse},
     month = {February},
     publisher = {IHU Liryc},
     title = {The MICROCARD Project},
     year = {2021}
    }

news about us

  1. Leading the way in European Supercomputing; A projects info pack by CORDIS.
    European Commission, April 2022. [link]  [bibtex] 

     

    @news{cordis-leading22,
     month = {April},
     publisher = {European Commission},
     title = {Leading the way in European Supercomputing; A projects info pack by CORDIS},
     url = {https://eurohpc-ju.europa.eu/sites/default/files/2022-04/ED-7309_CORDIS%20LotB_PIP%20European%20Supercomputing_Brochure_EN_LR%20acc.pdf},
     year = {2022}
    }
  2. Digitalisierung: Simulationsplattform für Herzrhythmusstörungen.
    Karlsruher Institut für Technologie, May 2021. (KIT press release MICROCARD kickoff[link]  [bibtex] 

     

    @news{KIT-kickoff-2021,
     month = {May},
     publisher = {Karlsruher Institut für Technologie},
     title = {Digitalisierung: Simulationsplattform für Herzrhythmusstörungen},
     url = {https://www.kit.edu/kit/29027.php},
     year = {2021}
    }
  3. European High-Performance Computing Projects Handbook.
    European Technology Platform for High Performance Computing, August 2021. [link]  [bibtex] 

     

    @news{etp4hpc-handbook-2021,
     month = {August},
     publisher = {European Technology Platform for High Performance Computing},
     title = {European High-Performance Computing Projects Handbook},
     url = {https://www.etp4hpc.eu/pujades/files/European%20HPC%20Handbook%202021%20final.pdf},
     year = {2021}
    }
  4. Calcul haute performance : Inria impliqué dans huit projets européens.
    Inria, 26 May 2021. [link]  [bibtex] 

     

    @news{inria-8-exascale-projects,
     month = {May},
     publisher = {Inria},
     title = {Calcul haute performance : Inria impliqué dans huit projets européens},
     url = {https://www.inria.fr/fr/calcul-haute-performance-euro-hpc-partenariats-europe},
     year = {2021}
    }
  5. Liryc - 3 scientific projects selected by Horizon 2020 in support of medical treatment challenges.
    International newsletter of Université de Bordeaux Université de Bordeaux, February 2021. (to appear in June 2021[bibtex] 

     

    @news{UBx-newsletter-2021-06,
     journal = {International newsletter of Université de Bordeaux},
     month = {February},
     publisher = {Université de Bordeaux},
     title = {Liryc - 3 scientific projects selected by Horizon 2020 in
    support of medical treatment challenges},
     year = {2021}
    }
  6. Moisson de projets européens de recherche pour l’université.
    Université de Bordeaux, February 2021. [link]  [bibtex] 

     

    @news{UBx-moisson-2020,
     month = {February},
     publisher = {Université de Bordeaux},
     title = {Moisson de projets européens de recherche pour l’université},
     url = {https://www.u-bordeaux.fr/Actualites/De-la-recherche/Moisson-de-projets-europeens-de-recherche-pour-l-universite},
     year = {2021}
    }
  7. Strong success for European research projects.
    Université de Bordeaux, February 2021. [link]  [bibtex] 

     

    @news{UBx-harvest-2020,
     month = {February},
     publisher = {Université de Bordeaux},
     title = {Strong success for European research projects},
     url = {https://www.u-bordeaux.com/News/Strong-success-for-European-research-projects},
     year = {2021}
    }
  8. Kick-off of the European project MICROCARD.
    IHU Liryc, 19 April 2021. [link]  [bibtex] 

     

    @news{Liryc-start-en,
     month = {April},
     publisher = {IHU Liryc},
     title = {Kick-off of the European project MICROCARD},
     url = {https://ihu-liryc.fr/en/actualites/b/lancement-du-projet-europeen-microcard},
     year = {2021}
    }
  9. Lancement du Projet Européen MICROCARD.
    IHU Liryc, 19 April 2021. [link]  [bibtex] 

     

    @news{Liryc-start-fr,
     month = {April},
     publisher = {IHU Liryc},
     title = {Lancement du Projet Européen MICROCARD},
     url = {https://ihu-liryc.fr/fr/actualites/b/lancement-du-projet-europeen-microcard},
     year = {2021}
    }
  10. The European High Performance Computing Joint Undertaking launched thirteen R&I projects in April.
    EuroHPC, April 2021. [link]  [bibtex] 

     

    @news{EuroHPC-start,
     month = {April},
     publisher = {EuroHPC},
     title = {The European High Performance Computing Joint Undertaking launched thirteen R\&I projects in April},
     url = {https://eurohpc-ju.europa.eu/news/european-high-performance-computing-joint-undertaking-launched-thirteen-ri-projects-april},
     year = {2021}
    }
  11. Al via progetto europeo “MICROCARD”.
    Università degli Studi di Pavia, May 2021. [link]  [bibtex] 

     

    @news{unipv56848,
     month = {May},
     publisher = {Università degli Studi di Pavia},
     title = {Al via progetto europeo “MICROCARD”},
     url = {http://news.unipv.it/?p=56848},
     year = {2021}
    }

miscellaneous

  1. European Researchers Night.
    , September 2022. (MICROCARD was present with a movie and flyers[bibtex] 

     

    @exhibition{ERN22-Bordeaux,
     month = {September},
     title = {European Researchers Night},
     year = {2022}
    }
  2. MICROCARD est un projet européen qui cherche à combattre les maladies cardiovasculaires ... en codant !.
    , September 2022. [bibtex] 

     

    @flyer{flyer-MICROCARD-ERN22-fr,
     month = {September},
     title = {MICROCARD est un projet européen qui cherche à combattre
    les maladies cardiovasculaires ... en codant !},
     year = {2022}
    }
  3. Numerical modeling of cardiac electrophysiology at the cellular scale.
    European Commission, 2021. (our record on the EU's CORDIS system[link]  [bibtex] 

     

    @website{microcard-cordis,
     publisher = {European Commission},
     title = {Numerical modeling of cardiac electrophysiology at the cellular scale},
     url = {https://cordis.europa.eu/project/id/955495},
     year = {2021}
    }

LinkedIn: @project MICROCARD

Twitter: @P_Microcard

Latest news

Aslak Tveito to step down

Aslak Tveito, CEO of our partner Simula, will step down from his position in January 2023 to spend more time on research.

Simone Pezzuto to Trento

The next MICROCARD member to move is Simone Pezzuto, who left USI to become an assistant professor at Università di Trento. He too will maintain a relationship with USI that allows him to stay with the project.

Amina Guermouche to Bordeaux INP

Amina Guermouche, until recently a research engineer at Inria, won a position as maître de conférences (associate professor) at the engineering school Bordeaux INP. She will continue working part-time on the MICROCARD project.


more news

Agenda

Monday 28 November

15:30 WP1 meeting (core partners)

Tuesday 29 November

14:30 WP4+5 meeting

Wednesday 7 December

11:00 WP3 meeting

15:00 Implementation taskforce meeting

Thursday 8 December

16:00 Executive Board meeting


full agenda

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