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MICROCARD Publications
preprints
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Convergence analysis of BDDC preconditioners for
composite DG discretizations of the cardiac
cell-by-cell model.
SIAM J. Sci. Comp. (accepted), 2023. (preprint) [pdf] [link] [bibtex] [arxiv]@article{huynh:BDDC, author = {Huynh, Ngoc Mai Monica and Chegini, Fatemeh and Pavarino, Luca Franco and Weiser, Martin and Scacchi, Simone}, journal = {SIAM J. Sci. Comp.}, pdf = {https://arxiv.org/pdf/2212.12295v2.pdf}, title = {Convergence analysis of {BDDC} preconditioners for composite {DG} discretizations of the cardiac cell-by-cell model}, url = {https://arxiv.org/abs/2212.12295v2}, volume = {(accepted)}, year = {2023} }
journal articles
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Boundary Integral Formulation of the Cell-by-Cell Model of
Cardiac Electrophysiology.
Engineering Analysis with Boundary Elements, vol. 158, pp. 239–251, 2024. [link] [bibtex] [arxiv]@article{rosilhoBEM, author = {Rosilho de Souza, Giacomo and Krause, Rolf and Pezzuto, Simone}, doi = {10.1016/j.enganabound.2023.10.021}, journal = {Engineering Analysis with Boundary Elements}, pages = {239-251}, title = {Boundary Integral Formulation of the Cell-by-Cell Model of Cardiac Electrophysiology}, url = {https://www.sciencedirect.com/science/article/pii/S0955799723005131}, volume = {158}, year = {2024} } -
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The role of pulse timing in cardiac defibrillation.
Frontiers in Network Physiology, vol. 2, pp. 1007585, January 2023. [link] [bibtex]@article{steyer2023_frontiers, author = {Steyer, Joshua and Lilienkamp, Thomas and Luther, Stefan and Parlitz, Ulrich}, doi = {10.3389/fnetp.2022.1007585}, journal = {Frontiers in Network Physiology}, month = {January}, pages = {1007585}, title = {The role of pulse timing in cardiac defibrillation}, url = {https://dx.doi.org/10.3389/fnetp.2022.1007585}, volume = {2}, year = {2023} } -
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À quoi servent les ordinateurs les plus puissants au monde ? Un exemple en cardiologie.
The Conversation, December 2022. [link] [bibtex]@article{saillard:super, author = {Saillard, Emmanuelle and Potse, Mark}, journal = {The Conversation}, month = {December}, title = {À quoi servent les ordinateurs les plus puissants au monde ? Un exemple en cardiologie}, url = {https://theconversation.com/a-quoi-servent-les-ordinateurs-les-plus-puissants-au-monde-un-exemple-en-cardiologie-195266}, year = {2022} } -
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Parallel nonlinear solvers in computational cardiac electrophysiology.
IFAC-PapersOnLine, vol. 55, no. 20, pp. 187–192, September 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}, month = {September}, 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} } -
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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, September 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}, month = {September}, 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} } -
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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, October 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}, month = {October}, 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} } -
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A Review of Healthy and Fibrotic Myocardium Microstructure
Modeling and Corresponding Intracardiac Electrograms.
Frontiers in Physiology, vol. 13, May 2022. [link] [bibtex]@article{Sanchez-2022-908069, author = {Sánchez, Jorge and Loewe, Axel}, doi = {10.3389/fphys.2022.908069}, journal = {Frontiers in Physiology}, month = {May}, 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} } -
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Resource-Efficient Use of Modern Processor Architectures
For Numerically Solving Cardiac Ionic Cell Models.
Frontiers in Physiology, vol. 13, article nr. 904648, June 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}, month = {June}, 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} } -
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Editorial: Atrial Fibrillation - Technology for Diagnosis, Monitoring, and Treatment.
Frontiers in Physiology, vol. 13, article nr. 848096, February 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}, month = {February}, 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} } -
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The openCARP CDE – Concept for and implementation of a sustainable collaborative development environment for research software.
Bausteine Forschungsdatenmanagement, vol. 2022, no. 1, March 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}, month = {March}, 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} } -
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Fibrotic Remodeling during Persistent Atrial Fibrillation:
In Silico Investigation of the Role of Calcium for
Human Atrial Myofibroblast Electrophysiology.
Cells, vol. 10, pp. 2852, October 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}, month = {October}, 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
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Sinoatrial Node Cell Response to Isoprenaline Stimulation and Hypocalcemia.
Computing in Cardiology, vol. 50, Atlanta, Georgia, USA, October 2023. [link] [bibtex]@inproceedings{TomasCinC_2023, address = {Atlanta, Georgia, USA}, author = {Stary, Tomas and Linder, Moritz and Loewe, Axel}, booktitle = {Computing in Cardiology}, month = {October}, title = {Sinoatrial Node Cell Response to Isoprenaline Stimulation and Hypocalcemia}, url = {https://cinc.org/2023/Program/accepted/114_CinCFinalPDF.pdf}, volume = {50}, year = {2023} } -
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Continuity of Microscopic Cardiac Conduction in a Computational Cell-by-Cell Model.
Computing in Cardiology, vol. 50, Atlanta, Georgia, USA, October 2023. [link] [bibtex]@inproceedings{JoshuaCinC_2023, address = {Atlanta, Georgia, USA}, author = {Steyer, Joshua and Chegini, Fatemeh and Potse, Mark and Loewe, Axel and Weiser, Martin}, booktitle = {Computing in Cardiology}, month = {October}, title = {Continuity of Microscopic Cardiac Conduction in a Computational Cell-by-Cell Model}, url = {https://cinc.org/2023/Program/accepted/385_CinCFinalPDF.pdf}, volume = {50}, year = {2023} } -
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The Two-Point Finite Volume scheme for the Microscopic Bidomain Model of Electrocardiology.
Tenth International Symposium on Finite Volumes for Complex Applications, Springer, October 2023. [link] [bibtex] [abstract]@inproceedings{chehade:fvca2023, author = {Chehade, Zeina and Coudière, Yves}, booktitle = {Tenth International Symposium on Finite Volumes for Complex Applications}, doi = {10.1007/978-3-031-40864-9}, month = {October}, publisher = {Springer}, title = {The Two-Point Finite Volume scheme for the Microscopic Bidomain Model of Electrocardiology}, url = {https://dx.doi.org/10.1007/978-3-031-40864-9}, year = {2023} } -
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GPU Code Generation of Cardiac Electrophysiology Simulation with MLIR.
Euro-Par 2023: Parallel Processing, pp. 549–563, Springer Nature Switzerland, Cham, August 2023. [link] [bibtex] [abstract]@inproceedings{trevisanjost:EP23, address = {Cham}, author = {Trevisan Jost, Tiago and Thangamani, Arun and Colin, Rapha{\"e}l and Loechner, Vincent and Genaud, St{\'e}phane and Bramas, B{\'e}renger}, booktitle = {Euro-Par 2023: Parallel Processing}, doi = {10.1007/978-3-031-39698-4_37}, editor = {Cano, Jos{\'e} and Dikaiakos, Marios D. and Papadopoulos, George A. and Peric{\`a}s, Miquel and Sakellariou, Rizos}, month = {August}, pages = {549-563}, publisher = {Springer Nature Switzerland}, title = {{GPU} Code Generation of Cardiac Electrophysiology Simulation with {MLIR}}, url = {https://dx.doi.org/10.1007/978-3-031-39698-4_37}, year = {2023} } -
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On the Accuracy of Eikonal Approximations in Cardiac Electrophysiology
in the Presence of Fibrosis.
Functional Imaging and Modeling of the Heart, vol. 13958 in Lecture Notes in Computer Science, pp. 137–146, Springer, Cham, June 2023. [link] [bibtex]@inproceedings{GanderEikoDiff23, address = {Cham}, author = {Gander, Lia and Krause, Rolf and Weiser, Martin and Sahli Costabal, Francisco and Pezzuto, Simone}, booktitle = {Functional Imaging and Modeling of the Heart}, doi = {10.1007/978-3-031-35302-4_14}, editor = {Bernard, Olivier and Clarysse, Patrick and Duchateau, Nicolas and Ohayon, Jacques and Viallon, Magalie}, month = {June}, pages = {137-146}, publisher = {Springer}, series = {Lecture Notes in Computer Science}, title = {On the Accuracy of Eikonal Approximations in Cardiac Electrophysiology in the Presence of Fibrosis}, url = {https://dx.doi.org/10.1007/978-3-031-35302-4_14}, volume = {13958}, year = {2023} } -
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Effect of Gap Junction Distribution, Size, and Shape
on the Conduction Velocity in a Cell-by-Cell Model for Electrophysiology.
Functional Imaging and Modeling of the Heart, vol. 13958 in Lecture Notes in Computer Science, pp. 117–126, Springer, Cham, June 2023. [link] [bibtex]@inproceedings{deSouzaGaps23, address = {Cham}, author = {Rosilho de Souza, Giacomo and Pezzuto, Simone and Krause, Rolf}, booktitle = {Functional Imaging and Modeling of the Heart}, doi = {10.1007/978-3-031-35302-4_12}, editor = {Bernard, Olivier and Clarysse, Patrick and Duchateau, Nicolas and Ohayon, Jacques and Viallon, Magalie}, month = {June}, pages = {117-126}, publisher = {Springer}, series = {Lecture Notes in Computer Science}, title = {Effect of Gap Junction Distribution, Size, and Shape on the Conduction Velocity in a Cell-by-Cell Model for Electrophysiology}, url = {https://dx.doi.org/10.1007/978-3-031-35302-4_12}, volume = {13958}, year = {2023} } -
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Simulated Excitation Patterns in the Atria and Their Corresponding Electrograms.
Functional Imaging and Modeling of the Heart, pp. 204–212, Springer Nature Switzerland, Cham, June 2023. [link] [bibtex]@inproceedings{steyer:fimh23, address = {Cham}, author = {Steyer, Joshua and Diaz, Lourdes Patricia Mart{\'i}nez and Unger, Laura Anna and Loewe, Axel}, booktitle = {Functional Imaging and Modeling of the Heart}, doi = {10.1007/978-3-031-35302-4_21}, editor = {Bernard, Olivier and Clarysse, Patrick and Duchateau, Nicolas and Ohayon, Jacques and Viallon, Magalie}, month = {June}, pages = {204--212}, publisher = {Springer Nature Switzerland}, title = {Simulated Excitation Patterns in the Atria and Their Corresponding Electrograms}, url = {https://dx.doi.org/10.1007/978-3-031-35302-4_21}, year = {2023} } -
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Lifting Code Generation of Cardiac Physiology Simulation to Novel Compiler Technology.
Proceedings of the 21st ACM/IEEE International Symposium on Code Generation and Optimization in CGO 2023, pp. 68–80, Association for Computing Machinery, New York, NY, USA, February 2023. [link] [bibtex]@inproceedings{10.1145/3579990.3580008, address = {New York, NY, USA}, author = {Thangamani, Arun and Jost, Tiago Trevisan and Loechner, Vincent and Genaud, St\'{e}phane and Bramas, B\'{e}renger}, booktitle = {Proceedings of the 21st ACM/IEEE International Symposium on Code Generation and Optimization}, doi = {10.1145/3579990.3580008}, month = {February}, pages = {68-80}, publisher = {Association for Computing Machinery}, series = {CGO 2023}, title = {Lifting Code Generation of Cardiac Physiology Simulation to Novel Compiler Technology}, url = {https://doi.org/10.1145/3579990.3580008}, year = {2023} } -
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Combining Uncore Frequency and Dynamic Power Capping to Improve Power Savings.
IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW), pp. 1028–1037, May 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}, month = {May}, 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} } -
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Mechanical Consequences of Electrical Remodeling due to Persistent Atrial Fibrillation: a Cellular Level Sensitivity Analysis.
Computing in Cardiology, vol. 49, Tampere, Finland, September 2022. [link] [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 }, url = {https://cinc.org/2022/Program/accepted/37_Preprint.pdf}, volume = {49}, year = {2022} } -
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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)}, doi = {10.23967/eccomas.2022.027}, month = {June}, title = {A practical algorithm to build geometric models of cardiac muscle structure}, url = {https://dx.doi.org/10.23967/eccomas.2022.027}, year = {2022} } -
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Adaptive multirate integration of cardiac electrophysiology with spectral deferred correction methods.
7th International Conference on Computational and Mathematical Biomedical Engineering (CMBE22), vol. 2, pp. 528–531, June 2022. [link] [bibtex]@inproceedings{WeiserChegini2022, author = {Weiser, Martin and Chegini, Fatemeh}, booktitle = {7th International Conference on Computational and Mathematical Biomedical Engineering (CMBE22)}, month = {June}, pages = {528--531}, title = {Adaptive multirate integration of cardiac electrophysiology with spectral deferred correction methods}, url = {https://www.compbiomed.net/2022/cmbe-proceedings.htm}, volume = {2}, year = {2022} } -
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Parallel-in-time multirate explicit stabilized method
for the monodomain model in cardiac electrophysiology.
7th International Conference on Computational and Mathematical Biomedical Engineering (CMBE22), vol. 2, pp. 535–538, June 2022. [link] [bibtex]@inproceedings{rosilhodesouza-cmbe22, author = {Rosilho de Souza, Giacomo and Pezzuto, Simone and Krause, Rolf}, booktitle = {7th International Conference on Computational and Mathematical Biomedical Engineering (CMBE22)}, month = {June}, pages = {535--538}, title = {Parallel-in-time multirate explicit stabilized method for the monodomain model in cardiac electrophysiology}, url = {https://www.compbiomed.net/2022/cmbe-proceedings.htm}, volume = {2}, year = {2022} }
conference abstracts
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Pipelines for Software Metadata Conversion and Publication.
deRSE23 - Conference for Research Software Engineering in Germany, Potsdam, February 2023. [pdf] [conference] [bibtex] [abstract]@abstract{deRSE-CI, address = {Potsdam}, author = {Stary, Tomas and Houillon, Marie and Klar, Jochen and Loewe, Axel}, booktitle = {deRSE23 - Conference for Research Software Engineering in Germany}, conference_url = {https://de-rse23.sciencesconf.org/program}, month = {February}, pdf = {docs/deRSE2023.pdf}, title = {Pipelines for Software Metadata Conversion and Publication}, year = {2023} } -
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Automated Software Metadata Conversion and Publication Based on CodeMeta.
E-Science-Tage 2023: Data to Knowledge, Heidelberg, March 2023. [pdf] [conference] [poster] [bibtex] [abstract]@abstract{eScience23-CI, address = {Heidelberg}, author = {Houillon, Marie and Klar, Jochen and Stary, Tomas and Loewe, Axel}, booktitle = {E-Science-Tage 2023: Data to Knowledge}, conference_url = {https://e-science-tage.de/index.php/en/agenda23}, month = {March}, pdf = {docs/2023_manuscript_poster_e_science_tage_1109-2.pdf}, poster_url = {https://archiv.ub.uni-heidelberg.de/volltextserver/33137/}, title = {Automated Software Metadata Conversion and Publication Based on CodeMeta}, year = {2023} } -
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Boundary Element Method for the Cell-by-Cell Model in Cardiac Electrophysiology.
15th World Congress on Computational Mechanics, Yokohama, Japan (Virtual), August 2022. [bibtex]@abstract{rosilho:wccm22, address = {Yokohama, Japan (Virtual)}, author = {Rosilho de Souza, Giacomo and Pezzuto, Simone and Krause, Rolf}, booktitle = {15th World Congress on Computational Mechanics}, month = {August}, title = {Boundary Element Method for the Cell-by-Cell Model in Cardiac Electrophysiology}, year = {2022} } -
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Parallel-in-Time Multirate Explicit Stabilized method for the Monodomain model in Cardiac Electrophysiology.
PinT 2022: 11th Workshop on Parallel-in-Time Integration, Marseille, France, July 2022. [link] [bibtex]@abstract{rosilho:pint22, address = {Marseille, France}, author = {Rosilho de Souza, Giacomo and Pezzuto, Simone and Krause, Rolf}, booktitle = {PinT 2022: 11th Workshop on Parallel-in-Time Integration}, month = {July}, title = {Parallel-in-Time Multirate Explicit Stabilized method for the Monodomain model in Cardiac Electrophysiology}, url = {https://www.cirm-math.fr/RepOrga/2642/Abstracts/RozillodeSuza.pdf}, year = {2022} } -
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Microscale cardiac electrophysiology on exascale supercomputers.
SIAM Conference on Parallel Processing for Scientific Computing (PP22), Seattle, WA, USA, February 2022. [link] [bibtex]@abstract{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}, url = {https://www.siam.org/Portals/0/Conferences/PP22/PP22_ABSTRACTS.pdf}, year = {2022} }
invited lectures
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Numerical modeling of cardiac electrophysiology at the cellular scale.
Symposium ``Where computation meets cardiology'', Maastricht, The Netherlands, November 2023. [bibtex]@lecture{potse-mumc23, address = {Maastricht, The Netherlands}, author = {Potse, Mark}, booktitle = {Symposium ``Where computation meets cardiology''}, month = {November}, title = {Numerical modeling of cardiac electrophysiology at the cellular scale}, year = {2023} } -
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To couple models for cardiac electrophysiology with transparent interface conditions.
International Conference on Operations Research 2023, Hamburg, Germany, August 2023. [bibtex]@lecture{strubberg:OR23, address = {Hamburg, Germany}, author = {Strubberg, Lea}, booktitle = {International Conference on Operations Research 2023}, month = {August}, title = {To couple models for cardiac electrophysiology with transparent interface conditions}, year = {2023} } -
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Higher order time Integration for EMI Cardiac Electrophysiology Simulations with Nested Subset Selection and BDDC Preconditioning.
ICIAM 2023, Tokyo, Japan, August 2023. [bibtex]@lecture{chegini:iciam23, address = {Tokyo, Japan}, author = {Chegini, Fatemeh}, booktitle = {ICIAM 2023}, month = {August}, title = {Higher order time Integration for EMI Cardiac Electrophysiology Simulations with Nested Subset Selection and BDDC Preconditioning}, year = {2023} } -
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Efficient numerical methods for simulating cardiac electrophysiology with cellular resolution.
Coupled 2023 Conference, Chania, Greece, June 2023. [bibtex]@lecture{weiser:coupled23, address = {Chania, Greece}, author = {Weiser, Martin}, booktitle = {Coupled 2023 Conference}, month = {June}, title = {Efficient numerical methods for simulating cardiac electrophysiology with cellular resolution}, year = {2023} } -
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Large Numerical modeling of cardiac electrophysiology at the cellular scale.
EuroHPC Summit: European Supercomputing Excellence in the Exascale Era, Göteborg, Sweden, March 2023. [link] [bibtex]@lecture{potse23eurohpc, address = {G{\"o}teborg, Sweden}, author = {Potse, Mark}, booktitle = {EuroHPC Summit: European Supercomputing Excellence in the Exascale Era}, month = {March}, organization = {EuroHPC}, title = {Large Numerical modeling of cardiac electrophysiology at the cellular scale}, url = {https://www.eurohpcsummit.eu/#monday}, year = {2023} } -
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Boundary integral formulation and numerical experiments on the Cell-by-Cell model for electrophysiology.
VII ECCOMAS Young Investigators Conference, Porto, Portugal, June 2023. [link] [bibtex]@lecture{rosilho:eccomas23, address = {Porto, Portugal}, author = {Rosilho de Souza, Giacomo and Pezzuto, Simone and Krause, Rolf}, booktitle = {VII ECCOMAS Young Investigators Conference}, doi = {10.5281/zenodo.8393047}, month = {June}, title = {Boundary integral formulation and numerical experiments on the Cell-by-Cell model for electrophysiology}, url = {https://dx.doi.org/10.5281/zenodo.8393047}, year = {2023} } -
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Scalable BDDC preconditioners for hybrid DG discretizations of cardiac microscopic models.
VII ECCOMAS Young Investigators Conference, Oporto, Portugal, June 2023. [bibtex]@lecture{huynhECCOMAS23, address = {Oporto, Portugal}, author = {Huynh, Ngoc Mai Monica}, booktitle = {VII ECCOMAS Young Investigators Conference}, month = {June}, title = {Scalable {BDDC} preconditioners for hybrid {DG} discretizations of cardiac microscopic models}, year = {2023} } -
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Robust preconditioned solvers for cardiac electrical models at microscales.
Math2Product 2023, Taormina, Italy, June 2023. [bibtex]@lecture{huynhM2P2023, address = {Taormina, Italy}, author = {Huynh, Ngoc Mai Monica}, booktitle = {Math2Product 2023}, month = {June}, title = {Robust preconditioned solvers for cardiac electrical models at microscales}, year = {2023} } -
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Implementing the µCARP simulator.
openCARP User Workshop, Karlsruhe, Germany, May 2023. [bibtex]@lecture{chegini:openCARP23, address = {Karlsruhe, Germany}, author = {Chegini, Fatemeh}, booktitle = {openCARP User Workshop}, month = {May}, title = {Implementing the µCARP simulator}, year = {2023} } -
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The EMI model and some implications on discretization and solution.
openCARP User Workshop, Karlsruhe, Germany, May 2023. [bibtex]@lecture{weiser:openCARP23, address = {Karlsruhe, Germany}, author = {Weiser, Martin}, booktitle = {openCARP User Workshop}, month = {May}, title = {The EMI model and some implications on discretization and solution}, year = {2023} } -
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Dual-primal domain decomposition preconditioners for composite discontinuous
Galerkin discretizations in cardiac electrophysiology.
Simula Research Laboratory, Norway, May 2023. [bibtex]@lecture{huynhEMIx23, address = {Simula Research Laboratory, Norway}, author = {Huynh, Ngoc Mai Monica}, month = {May}, title = {Dual-primal domain decomposition preconditioners for composite discontinuous Galerkin discretizations in cardiac electrophysiology}, year = {2023} } -
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BDDC preconditioners for hybrid discontinuous Galerkin discretizations in cardiac electrophysiology.
SIAM Conference on Computational Science and Engineering, Amsterdam, NL, 1 March 2023. [bibtex]@lecture{huynhSIAMCSE2023, address = {Amsterdam, NL}, author = {Huynh, Ngoc Mai Monica}, booktitle = {SIAM Conference on Computational Science and Engineering}, month = {March}, title = {{BDDC} preconditioners for hybrid discontinuous {Galerkin} discretizations in cardiac electrophysiology}, year = {2023} } -
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Boundary Integral Formulation of the Cell-by-Cell Model of
Cardiac Electrophysiology.
Simula Research Laboratory, Norway, June 2023. [bibtex]@lecture{pezzutoEMIx23, address = {Simula Research Laboratory, Norway}, author = {Rosilho de Souza, Giacomo and Krause, Rolf and Pezzuto, Simone}, month = {June}, title = {Boundary Integral Formulation of the Cell-by-Cell Model of Cardiac Electrophysiology}, year = {2023} } -
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Boundary Integral Formulation of the Cell-by-Cell Model of
Cardiac Electrophysiology.
SIAM Conference on Computational Science and Engineering, Amsterdam, The Netherlands, February 2023. [bibtex]@lecture{pezzutoSIAM23, address = {Amsterdam, The Netherlands}, author = {Rosilho de Souza, Giacomo and Krause, Rolf and Pezzuto, Simone}, booktitle = {SIAM Conference on Computational Science and Engineering}, month = {February}, title = {Boundary Integral Formulation of the Cell-by-Cell Model of Cardiac Electrophysiology}, year = {2023} } -
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Adaptive multirate integration of cardiac electrophysiology with spectral deferred correction methods.
SIAM Conference on Computational Science and Engineering, Amsterdam, NL, 3 March 2023. [bibtex]@lecture{weiserSIAMCSE2023, address = {Amsterdam, NL}, author = {Weiser, Martin and Chegini, Fatemeh and Steinke, Thomas}, booktitle = {SIAM Conference on Computational Science and Engineering}, month = {March}, title = {Adaptive multirate integration of cardiac electrophysiology with spectral deferred correction methods}, year = {2023} } -
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Challenges and opportunities for cardiac simulation at exascale.
HiPEAC 2023, Toulouse, January 2023. (HeLP-DC Workshop on Heterogeneous and Low-Power Data Center technologies) [bibtex]@lecture{vigmond23hipeac, address = {Toulouse}, author = {Vigmond, Edward}, booktitle = {HiPEAC 2023}, month = {January}, title = {Challenges and opportunities for cardiac simulation at exascale}, year = {2023} } -
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Exploiting the Flexibility of Spectral Deferred Correction Methods.
TU Hamburg, 14 November 2022. [bibtex]@lecture{weiserTUHH2022, address = {TU Hamburg}, author = {Weiser, Martin}, month = {November}, title = {Exploiting the Flexibility of Spectral Deferred Correction Methods}, year = {2022} } -
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Higher order time integration with algebraic adaptivity in a cell by cell discretization of cardiac excitation.
WCCMC 2022, Yokohama, Japan, August 2022. [bibtex]@lecture{cheginiWCCMC22, address = {Yokohama, Japan}, author = {Chegini, Fatemeh}, booktitle = {WCCMC 2022}, month = {August}, title = {Higher order time integration with algebraic adaptivity in a cell by cell discretization of cardiac excitation}, year = {2022} } -
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Adaptive multirate integration of cardiac electrophysiology with spectral deferred correction methods.
International Multigrid Conference, Lugano, CH, 25 August 2022. [bibtex]@lecture{weiserIMG2022, address = {Lugano, CH}, author = {Weiser, Martin and Chegini, Fatemeh}, booktitle = {International Multigrid Conference}, month = {August}, title = {Adaptive multirate integration of cardiac electrophysiology with spectral deferred correction methods}, year = {2022} } -
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Adaptive multirate integration of cardiac electrophysiology with spectral deferred correction methods.
Computational and Mathematical Biomedical Engineering, Milan, Italy, 28 June 2022. [bibtex]@lecture{weiserCMBE2022, address = {Milan, Italy}, author = {Weiser, Martin and Chegini, Fatemeh}, booktitle = {Computational and Mathematical Biomedical Engineering}, month = {June}, title = {Adaptive multirate integration of cardiac electrophysiology with spectral deferred correction methods}, year = {2022} } -
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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} } -
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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} } -
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Theoretically optimal inexact spectral deferred correction methods.
U Pavia, Italy, June 2022. [bibtex]@lecture{weiser22Pavia, address = {U Pavia, Italy}, author = {Weiser, Martin}, month = {June}, title = {Theoretically optimal inexact spectral deferred correction methods}, year = {2022} } -
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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} } -
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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} } -
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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} } -
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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} } -
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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]@lecture{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} } -
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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} } -
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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} } -
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Numerik auf Höchstleistungsrechnern.
Kolloquium GI Regionalgruppe Berlin-Brandenburg, online, 25 November 2021. [bibtex]@lecture{weiserSteinkeGI2021, address = {online}, author = {Weiser, M. and Steinke, T.}, booktitle = {Kolloquium GI Regionalgruppe Berlin-Brandenburg}, month = {November}, title = {Numerik auf {H\"{o}chstleistungsrechnern}}, year = {2021} } -
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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
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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} } -
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} } -
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} } -
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} } -
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} } -
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} } -
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} } -
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} } -
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} } -
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} } -
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
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Minisymposium on Multilevel methods for cardiac simulations.
International Multigrid Conference, Lugano, CH, 25 August 2022. [link] [bibtex]@workshop{pezzutoWeiserIMG22, address = {Lugano, CH}, author = {Pezzuto, Simone and Weiser, Martin}, booktitle = {International Multigrid Conference}, month = {August}, title = {Minisymposium on Multilevel methods for cardiac simulations}, url = {https://www.img2022.usi.ch/index.php?option=com_content&view=article&id=6&Itemid=295}, year = {2022} } -
European Researchers Night.
exhibition, The MICROCARD consortium, Bordeaux, France, September 2022. (MICROCARD was present with a movie and flyers) [link] [bibtex]@exhibition{ERN22-Bordeaux, address = {Bordeaux, France}, month = {September}, publisher = {The MICROCARD consortium}, title = {European Researchers Night}, url = {https://www.u-bordeaux.fr/en/research/science-and-society/european-researchers-night}, year = {2022} } -
MICROCARD est un projet européen qui cherche à combattre
les maladies cardiovasculaires ... en codant !.
flyer, The MICROCARD consortium, September 2022. [link] [bibtex]@flyer{flyer-MICROCARD-ERN22-fr, month = {September}, publisher = {The MICROCARD consortium}, title = {{MICROCARD} est un projet européen qui cherche à combattre les maladies cardiovasculaires ... en codant !}, url = {https://microcard.eu/docs/flyer1.pdf}, year = {2022} } -
Numerical modeling of cardiac electrophysiology at the cellular scale.
website, 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} }