@inbook {43265,
	title = {Finite element software and performance for mixed-dimensional network models},
	booktitle = {TBA},
	year = {2023},
	pages = {TBA},
	publisher = {Springer},
	organization = {Springer},
	author = {Daversin-Catty, C{\'e}cile and Joseph P. {Dean} and Marie E. {Rognes}}
}
@article {43033,
	title = {On The Importance of Fundamental Computational Fluid Dynamics Towards a Robust and Reliable Model of Left Atrial Flows: Is There More Than Meets the Eye?},
	journal = {International journal of numerical methods in biomedical engineering},
	year = {2023},
	publisher = { John Wiley \& Sons},
	author = {Khalili, Ehsan and Daversin-Catty, C{\'e}cile and Andy L. {Olivares} and Mill, Jordi and Camara, Oscar and Valen-Sendstad, Kristian}
}
@article {43078,
	title = {simcardems: A FEniCS-based cardiac electro-mechanicssolver},
	journal = {Journal of Open Source Software},
	volume = {88442954520810717},
	year = {2023},
	month = {Jan-01-2023},
	pages = {4753},
	publisher = {JOSS},
	doi = {10.21105/joss.04753},
	url = {https://joss.theoj.org/papers/10.21105/joss.04753},
	author = {Finsberg, Henrik and Ilsbeth Gerarda Ma {van Herck} and Daversin-Catty, C{\'e}cile and Arevalo, Hermenegild and Wall, Samuel}
}
@inproceedings {43032,
	title = {A Comparative Study of Normal and High-Fidelity Approaches to Predict Flow Physics of Left Atrium},
	journal = {Computing in Cardiology, CinC 2022},
	year = {2022},
	publisher = {IEEE},
	url = {https://cinc.org/2022/Program/accepted/28.pdf},
	author = {Khalili, Ehsan and Daversin-Catty, C{\'e}cile and Valen-Sendstad, Kristian}
}
@misc {43030,
	title = {A Comparative Study of  Normal and High-Fidelity Computational Fluid Dynamics Approaches to  Predict Flow Physics of Left Atrium},
	howpublished = {Computing in Cardiology, Tampere, Finland},
	year = {2022},
	url = {https://cinc.org/2022/Program/accepted/28.pdf},
	author = {Khalili, Ehsan and Daversin-Catty, C{\'e}cile and Valen-Sendstad, Kristian}
}
@misc {42849,
	title = {Computational 3D cardiac electromechanical models for functional and pharmacological analysis},
	howpublished = {9th International Workshop on Cardiac Mechano-Electric Coupling and Arrhythmias},
	year = {2022},
	author = {Ilsbeth Gerarda Ma {van Herck} and Llopis-Lorente, Jordi and Finsberg, Henrik and Daversin-Catty, C{\'e}cile and Mora, Maria and Saiz, Javier and Trenor, Beatriz and Arevalo, Hermenegild and Wall, Samuel}
}
@misc {43022,
	title = {Computational Fluid Dynamics Approaches to Predict Flow Physics of Left Atrium},
	howpublished = {Universitat Pompeu Fabra - Barcelona, Spain},
	year = {2022},
	author = {Khalili, Ehsan and Kjeldsberg, Henrik and Sergio Nabil {Gadur} and Daversin-Catty, C{\'e}cile and Valen-Sendstad, Kristian}
}
@misc {42561,
	title = {Functional Analysis of Healthy and Heart Failure Tissue Populations using 3D Cardiac Electromechanical Models},
	howpublished = {15th World Congress on Computational Mechanics (virtual)},
	year = {2022},
	abstract = {Computer modelling and simulation of the beating heart must reflect on electrical activation of cells and tissue, mechanical properties of tissue, and their interaction. Electrophysiological properties of the heart have been simulated abundantly and applied to increase mechanistic understanding of disease and improve treatment development. Recent maturity in cardiac mechanical modelling increased quantitative predictive power. However, tight coupling of cardiac mechanics with the underlying electrophysiological properties of the tissue makes modelling clinical mechanical phenomena such as cardiac disease and drug effects difficult. A combination of uncertainty quantification through populations of models and fully coupled electromechanics models provide greater predictive power on cardiac mechanisms and aid treatment development for cardiac diseases.\&nbsp;A fully coupled electromechanics model of ventricular tissue is developed by coupling the O{\textquoteright}Hara-Rudy[1] electrophysiology model and the Land[2] mechanics model. A population of models was created by varying 16 electrophysiological and 11 mechanical parameters at the cell level. The population was calibrated from 1000 to 187 models based on biomarkers derived from the action potential shape, calcium transient and active tension. This calibrated population was altered in 11 parameters of the cell model to represent heart failure (based on [3]). A geometry of 20x7x3 mm is simulated with 1.0 or 0.5 mm spatial resolution for mechanics or electrophysiology respectively, with free movement in the fibre direction on one side. Results are extracted at the centre of the tissue, as well as tissue shortening on the free-contracting side.\&nbsp;Relative to the healthy population, heart failure manifests in both electrophysiological and mechanics biomarkers. The action potential takes ~20\% longer to recover from activation and peak calcium concentration in the cell is reduced by 50.9\%. In a similar trend, mechanical biomarkers show 42.2\% reduction in peak active force, slower contraction and more variation in recovery times across the heart failure tissue population. The peak tissue shortening in the fibre direction as a result of free contraction is reduced from 0.68{\textpm}0.07mm to 0.45{\textpm}0.07mm (-33.2\%) and its peak is delayed by 112ms (38.6\%) in heart failure.\&nbsp;These simulations indicate strong effects on electrophysiological and mechanical heart function by population variation and disease such as heart failure. Therefore, strongly coupled 3D models are necessary to assess the impact of biological variation, cardiac vulnerability as well as safe and effective treatment development.REFERENCES[1]\&nbsp;\&nbsp;\&nbsp;\&nbsp; O{\textquoteright}Hara, T. et al.; PLoS Comput. Biol. 2011 [doi:10.1371/journal.pcbi.1002061][2]\&nbsp;\&nbsp;\&nbsp;\&nbsp; Land, S. et al.; J. Mol. Cell. Cardiol. 2017 [doi:10.1016/J.YJMCC.2017.03.008][3]\&nbsp;\&nbsp;\&nbsp;\&nbsp; Gomez, J. et al; PLoS ONE 2014 [doi:10.1371/journal.pone.0106602]},
	keywords = {Cardiac biomechanics, Cardiac disease, Uncertainty quantification},
	author = {Ilsbeth Gerarda Ma {van Herck} and Finsberg, Henrik and Daversin-Catty, C{\'e}cile and Mora, Maria and Trenor, Beatriz and Arevalo, Hermenegild and Wall, Samuel}
}
@article {daversincatty2021geometrically,
	title = {Geometrically reduced modelling of pulsatile flow in perivascular networks},
	journal = {Frontiers in Physics},
	volume = {10},
	year = {2022},
	publisher = {Frontiers},
	abstract = {Flow of cerebrospinal fluid in perivascular spaces is a key mechanism underlying brain transport and clearance. In this paper, we present a mathematical and numerical formalism for reduced models of pulsatile viscous fluid flow in networks of generalized annular cylinders. We apply this framework to study cerebrospinal fluid flow in perivascular spaces induced by pressure differences, cardiac pulse wave-induced vascular wall motion and vasomotion. The reduced models provide approximations of the cross-section average pressure and cross-section flux, both defined over the topologically one-dimensional centerlines of the network geometry. Comparing the full and reduced model predictions, we find that the reduced models capture pulsatile flow characteristics and provide accurate pressure and flux predictions across the range of idealized and image-based scenarios investigated{\textemdash}at a fraction of the computational cost of the corresponding full models. The framework presented thus provides a robust and effective computational approach for large scale in-silico studies of pulsatile perivascular fluid flow and transport.},
	doi = {10.3389/fphy.2022.882260},
	url = {https://www.frontiersin.org/article/10.3389/fphy.2022.882260},
	author = {Daversin-Catty, C{\'e}cile and Gjerde, Ingeborg and Marie E. {Rognes}}
}
@misc {43225,
	title = {Modeling fluid flow in perivascular networks},
	howpublished = {ECCOMAS22, Oslo (Norway)},
	year = {2022},
	doi = {https://doi.org/10.5281/zenodo.7848945},
	author = {Daversin-Catty, C{\'e}cile and Vinje, Vegard and Gjerde, Ingeborg and Mardal, Kent-Andre and Marie E. {Rognes}}
}
@misc {42850,
	title = {Omecamtiv Mecarbil Improves Contraction Behaviour in a 3D Electromechanical Tissue Model of Heart Failure},
	howpublished = {49th Computing in Cardiology Conference},
	year = {2022},
	author = {Ilsbeth Gerarda Ma {van Herck} and Mora, Maria and Finsberg, Henrik and Daversin-Catty, C{\'e}cile and Trenor, Beatriz and Arevalo, Hermenegild and Wall, Samuel}
}
@inproceedings {42559,
	title = {Population of Computational Cell and Tissue Cardiac Electromechanical Models for functional analysis},
	journal = {World Congress of Biomechanics},
	year = {2022},
	edition = {9th},
	abstract = {IntroductionCardiac computational models can fill important gaps in understanding the cardiomyocyte or cardiac tissue properties. Recent maturity in cardiac mechanical modelling enables quantitative predictive power across a range of applications. One challenge however is the tight coupling of cardiac mechanics with the underlying electrophysiological properties of the tissue, which makes modelling clinical mechanical phenomena such as drug effects difficult. More robust predictions can be achieved by modelling populations of models, which incorporate stochastic parameter variability to represent biological variation. For cardiac computational models to live up to their potential in developing safe and efficient treatments for increasingly prevalent cardiac disease, such populations of fully coupled electromechanics models will provide greater predictive power on mechanics and physiology of the heart.\&nbsp;MethodsA fully coupled electromechanics model of ventricular tissue is developed by coupling the O{\textquoteright}Hara-Rudy[1] electrophysiology model and the Land[2] mechanics model. A population of models was created by varying 16 electrophysiological and 11 mechanical parameters at the cell level. The population was calibrated from 1000 to 187 models based on biomarkers derived from the action potential shape, calcium transient and active tension. The electromechanics solver is implemented by combining existing solvers for electrophysiology[3] and mechanics[4], which are both based on the open-source framework FEniCS[5]. A geometry of 20x7x3 mm is simulated with 1.0 or 0.5 mm spatial resolution for mechanics or electrophysiology respectively, with free movement in the fibre direction on one side.\&nbsp;ResultsTraces from all population models were extracted at the center of the tissue in all directions (green star in top left panel) for further analysis (see figure). Electrophysiological biomarkers, such as action potential duration and systolic calcium concentration remain within calibrated and cell population model range. The maximum active tension in tissue is reduced by 65\% compared to cell simulations. This reduction can be attributed to the free contraction in tissue versus fixed stretch in calibration and cell simulations. The magnitude and especially the recovery duration of active stretch varies widely across the population (see table for average{\textpm}SD). This range of timing and force of contraction reinforce the need to assess cardiac function and drug effects in populations of electromechanical models.\&nbsp;DiscussionWe present a pipeline for creating populations of strongly coupled 3D excitation-contraction models for ventricular tissue. The tissue model includes bidirectional coupling and biological variation, facilitating further investigation into the multifactorial effect of variation and drugs on the in silico human heart. This enables simulation of both mechanical and physiological function of the heart to aid development of safe and efficient treatment based on population statistics.\&nbsp;ReferencesO{\textquoteright}Hara, T. et al.; PLoS Comput Biol 2011 [doi:10.1371/journal.pcbi.1002061]Land, S. et al.; J. Mol. Cell. Cardiol. 2017 [doi:10.1016/J.YJMCC.2017.03.008]Logg, A. et al.; Springer 2012 [doi:10.1007/978-3-642-23099-8]Rognes, M. E. et al.; Journal of Open Source Software, 2017 [doi:10.21105/joss.00224]Finsberg, H. N. T.; Journal of Open Source Software, 2019 [doi:10.21105/joss.01539]},
	author = {van Herck, Ilse and Finsberg, Henrik and Daversin-Catty, C{\'e}cile and Mora, Maite and Trenor, Beatriz and Arevalo, Hermenegild and Wall, Samuel}
}
@article {paper31,
	title = {Abstractions and automated algorithms for mixed-dimensional finite element methods},
	journal = {ACM Transactions on Mathematical Software},
	volume = {47},
	year = {2021},
	month = {09/2021},
	pages = {1-36},
	publisher = {ACM},
	author = {Daversin-Catty, C{\'e}cile and Chris N. {Richardson} and Ada Johanne {Ellingsrud} and Marie E. {Rognes}}
}
@inbook {27254,
	title = {A cell-based model for ionic electrodiffusion in excitable tissue},
	booktitle = {Modeling Excitable Tissue: The EMI Framework},
	number = {7},
	year = {2021},
	pages = {14-27},
	publisher = {Springer International Publishing},
	organization = {Springer International Publishing},
	address = {Cham},
	url = {https://www.springer.com/gp/book/9783030611569},
	author = {Ada Johanne {Ellingsrud} and Daversin-Catty, C{\'e}cile and Marie E. {Rognes}},
	editor = {Mardal, Kent-Andre and Marie E. {Rognes} and Tveito, Aslak}
}
@misc {43223,
	title = {Mixed-dimensional coupled finite elements in FEniCS.},
	howpublished = {Indo-Norwegian workshop on computational challenges and modelling of coupled processes in porous media, University of Bergen (Norway)},
	year = {2021},
	doi = {https://doi.org/10.5281/zenodo.7849094},
	author = {Daversin-Catty, C{\'e}cile and Marie E. {Rognes}}
}
@misc {43224,
	title = {Modeling fluid flow in perivascular networks},
	howpublished = {Oslo glymphatics symposium, Oslo (Norway)},
	year = {2021},
	doi = {https://doi.org/10.5281/zenodo.7848945},
	author = {Daversin-Catty, C{\'e}cile and Gjerde, Ingeborg and Mardal, Kent-Andre and Marie E. {Rognes} and Vinje, Vegard}
}
@article {27722,
	title = {The mechanisms behind perivascular fluid flow},
	journal = {PLOS ONE},
	volume = {15},
	number = {12},
	year = {2020},
	pages = {1-20},
	publisher = {Public Library of Science},
	abstract = {Flow of cerebrospinal fluid (CSF) in perivascular spaces (PVS) is one of the key concepts involved in theories concerning clearance from the brain. Experimental studies have demonstrated both net and oscillatory movement of microspheres in PVS (Mestre et al. (2018), Bedussi et al. (2018)). The oscillatory particle movement has a clear cardiac component, while the mechanisms involved in net movement remain disputed. Using computational fluid dynamics, we computed the CSF velocity and pressure in a PVS surrounding a cerebral artery subject to different forces, representing arterial wall expansion, systemic CSF pressure changes and rigid motions of the artery. The arterial wall expansion generated velocity amplitudes of 60{\textendash}260\&nbsp;μm/s, which is in the upper range of previously observed values. In the absence of a static pressure gradient, predicted net flow velocities were small (\&lt;0.5\&nbsp;μm/s), though reaching up to 7\&nbsp;μm/s for non-physiological PVS lengths. In realistic geometries, a static systemic pressure increase of physiologically plausible magnitude was sufficient to induce net flow velocities of 20{\textendash}30\&nbsp;μm/s. Moreover, rigid motions of the artery added to the complexity of flow patterns in the PVS. Our study demonstrates that the combination of arterial wall expansion, rigid motions and a static CSF pressure gradient generates net and oscillatory PVS flow, quantitatively comparable with experimental findings. The static CSF pressure gradient required for net flow is small, suggesting that its origin is yet to be determined.},
	doi = {10.1371/journal.pone.0244442},
	url = {https://doi.org/10.1371/journal.pone.0244442},
	author = {Daversin-Catty, C{\'e}cile and Vinje, Vegard and Mardal, Kent-Andre and Marie E. {Rognes}}
}
@misc {27011,
	title = {Mixed-dimensional coupled finite elements in FEniCS},
	howpublished = {FEniCS{\textquoteright}19, Washington DC, USA},
	year = {2019},
	author = {Daversin-Catty, C{\'e}cile and Marie E. {Rognes}}
}
@misc {27012,
	title = {Mixed-dimensional coupled finite elements in FEniCS},
	howpublished = {ENUMATH 2019, Egmond aan Zee, The Netherlands},
	year = {2019},
	author = {Daversin-Catty, C{\'e}cile and Marie E. {Rognes}}
}
@misc {26051,
	title = {Mixed-dimensional coupled finite elements in FEniCS},
	howpublished = {FEniCS18, Oxford, UK},
	year = {2018},
	note = {Best postdoctoral presentation award at the FEniCS{\textquoteright}18},
	author = {Daversin-Catty, C{\'e}cile and Marie E. {Rognes}}
}
@misc {27010,
	title = {Mixed-dimensional coupled finite elements in FEniCS},
	howpublished = {ECCM-ECFD 2018, Glasgow (UK)},
	year = {2018},
	author = {Daversin-Catty, C{\'e}cile and Marie E. {Rognes}}
}
@misc {25819,
	title = {Mixed-dimensional modeling of the brain{\textquoteright}s waterscape},
	howpublished = {Workshop on solvers for materials with high-aspect-ratio inclusions, Finse, Norway},
	year = {2018},
	author = {Daversin-Catty, C{\'e}cile and Marie E. {Rognes}}
}
@misc {27013,
	title = {Mixed-dimensional modeling of the brain{\textquoteright}s waterscape},
	year = {2018},
	address = {InterPore 2018, New-Orleans (USA)},
	author = {Daversin-Catty, C{\'e}cile and Marie E. {Rognes}}
}
@misc {27007,
	title = {Mixed-dimensional models of the brain{\textquoteright}s waterscape with FEniCS},
	howpublished = {InterPore 2018, New-Orleans (USA)},
	year = {2018},
	author = {Daversin-Catty, C{\'e}cile and Marie E. {Rognes}}
}
@misc {26769,
	title = {Waterscape of the Brain: Mathematics and Scientific Computing Enabling Clinical Simulation},
	howpublished = {Simula Research Conference, Son, Norway},
	year = {2018},
	author = {Marie E. {Rognes} and Thompson, Travis and Daversin-Catty, C{\'e}cile}
}
@inbook {27015,
	title = {Simultaneous Empirical Interpolation and Reduced Basis Method: Application to Non-linear Multi-Physics Problem},
	booktitle = {Model Reduction of Parametrized Systems},
	volume = {17},
	year = {2017},
	pages = {17 - 35},
	publisher = {Springer International Publishing},
	organization = {Springer International Publishing},
	issn = {978-3-319-58786-8},
	doi = {10.1007/978-3-319-58786-8_2},
	author = {Daversin-Catty, C{\'e}cile and Prud{\textquoteright}homme, Christophe},
	editor = {Benner, Peter and Ohlberger, Mario and Patera, Anthony and Rozza, Gianluigi and Urban, Karsten}
}
@misc {25818,
	title = {Towards coupled mixed dimensional finite elements in FEniCS},
	howpublished = {FEniCS17 conference, University of Luxembourg, Luxembourg},
	year = {2017},
	author = {Daversin-Catty, C{\'e}cile and Marie E. {Rognes}}
}
@article {27014,
	title = {Simultaneous empirical interpolation and reduced basis method for non-linear problems},
	journal = {Comptes Rendus Mathematique},
	volume = {353},
	number = {12},
	year = {2015},
	pages = {1105 - 1109},
	publisher = {Elsevier Masson},
	issn = {1631-073X},
	author = {Daversin-Catty, C{\'e}cile and Prud{\textquoteright}homme, Christophe}
}
