references.bib

@unpublished{poulain2022,
  title       = {{Multi-compartmental model of glymphatic clearance of solutes in brain tissue}},
  author      = {Poulain, Alexandre and Riseth, J{{\o}}rgen and Vinje, Vegard},
  url         = {https://hal.archives-ouvertes.fr/hal-03789563},
  note        = {working paper or preprint},
  year        = {2022},
  month       = Sep,
  pdf         = {https://hal.archives-ouvertes.fr/hal-03789563/file/multicompartment-glymphatics.pdf},
  hal_id      = {hal-03789563},
  hal_version = {v1}
}


@article{Causemann2022,
  author       = {Causemann, Marius and Vinje, Vegard and Rognes, Marie E.},
  title        = {Human intracranial pulsatility during the cardiac cycle: a computational modelling framework},
  elocation-id = {2022.05.19.492650},
  year         = {2022},
  doi          = {10.1101/2022.05.19.492650},
  publisher    = {Cold Spring Harbor Laboratory},
  journal      = {bioRxiv}
}


@inbook{Valnes2022,
  author    = {Mardal, Kent-Andr{\'e}
               and Rognes, Marie E.
               and Thompson, Travis B.
               and Valnes, Lars Magnus},
  title     = {{Getting started: from T1 images to simulation}},
  booktitle = {{Mathematical Modeling of the Human Brain: From Magnetic Resonance Images to Finite Element Simulation}},
  year      = {2022},
  publisher = {{Springer International Publishing}},
  address   = {Cham},
  pages     = {23--46},
  isbn      = {978-3-030-95136-8},
  doi       = {10.1007/978-3-030-95136-8_3}
}


@article{Daversin2022,
  author  = {Daversin-Catty, Cécile and Gjerde, Ingeborg G. and Rognes, Marie E.},
  title   = {{Geometrically Reduced Modelling of Pulsatile Flow in Perivascular Networks}},
  journal = {Frontiers in Physics},
  volume  = {10},
  year    = {2022},
  doi     = {10.3389/fphy.2022.882260},
  issn    = {2296-424X}
}


@article{Gjerde2022,
  title   = {Nitsche's method for Navier--Stokes equations with slip boundary conditions},
  author  = {Gjerde, Ingeborg and Scott, L},
  journal = {Mathematics of Computation},
  volume  = {91},
  number  = {334},
  pages   = {597--622},
  year    = {2022},
  doi     = {10.1090/mcom/3682}
}


@article{Haubner2021,
  author  = {Haubner, Johannes and Neumann, Franziska and Ulbrich, Michael},
  title   = {{A Novel Density Based Approach for Topology Optimization of Stokes Flow}},
  journal = {SIAM Journal on Scientific Computing},
  volume  = {45},
  number  = {2},
  pages   = {A338-A368},
  year    = {2023},
  doi     = {10.1137/21M143114X}
}

@article{saetra2021,
  doi       = {10.1371/journal.pcbi.1008143},
  author    = {Sætra, Marte J. AND Einevoll, Gaute T. AND Halnes, Geir},
  journal   = {PLOS Computational Biology},
  publisher = {Public Library of Science},
  title     = {An electrodiffusive neuron-extracellular-glia model for exploring the genesis of slow potentials in the brain},
  year      = {2021},
  month     = {07},
  volume    = {17},
  pages     = {1-45},
  number    = {7}
}

@misc{budisa2022,
  doi       = {10.48550/ARXIV.2210.13274},
  url       = {https://arxiv.org/abs/2210.13274},
  author    = {Budisa, Ana and Hu, Xiaozhe and Kuchta, Miroslav and Mardal, Kent-Andre and Zikatanov, Ludmil},
  keywords  = {Numerical Analysis (math.NA), FOS: Mathematics, FOS: Mathematics, G.1.8; G.4, 65-04, 65N55, 65F08, 65H10},
  title     = {{HAZniCS -- Software Components for Multiphysics Problems}},
  publisher = {arXiv},
  year      = {2022},
  copyright = {arXiv.org perpetual, non-exclusive license}
}

@misc{zapf2023medical,
  title         = {Medical image registration using optimal control of a linear hyperbolic transport equation with a DG discretization},
  author        = {Bastian Zapf and Johannes Haubner and Lukas Baumgärtner and Stephan Schmidt},
  year          = {2023},
  eprint        = {2305.03020},
  archiveprefix = {arXiv},
  primaryclass  = {math.NA}
}


@article{Dokken2024adios,
  doi       = {10.21105/joss.06451},
  year      = {2024},
  publisher = {The Open Journal},
  volume    = {9},
  number    = {96},
  pages     = {6451},
  author    = {Jørgen Schartum Dokken},
  title     = {{ADIOS4DOLFINx: A framework for checkpointing in FEniCS}},
  journal   = {Journal of Open Source Software}
}


@article{Laughlin2023smart,
  doi       = {10.21105/joss.05580},
  year      = {2023},
  publisher = {The Open Journal},
  volume    = {8},
  number    = {90},
  pages     = {5580},
  author    = {Justin G. Laughlin and Jørgen S. Dokken and Henrik N.t. Finsberg and Emmet A. Francis and Christopher T. Lee and Marie E. Rognes and Padmini Rangamani},
  title     = {{SMART: Spatial Modeling Algorithms for Reactions and Transport}},
  journal   = {Journal of Open Source Software}
}

@article{Sætra2023,
    doi = {10.1371/journal.pcbi.1010996},
    author = {Sætra, Marte J. AND Ellingsrud, Ada J. AND Rognes, Marie E.},
    journal = {PLOS Computational Biology},
    publisher = {Public Library of Science},
    title = {Neural activity induces strongly coupled electro-chemo-mechanical interactions and fluid flow in astrocyte networks and extracellular space—A computational study},
    year = {2023},
    month = {07},
    volume = {19},
    url = {https://doi.org/10.1371/journal.pcbi.1010996},
    pages = {1-31},
    number = {7}
}

@article{saetra2024,
    doi = {10.1371/journal.pcbi.1012114},
    author = {Sætra, Marte J. AND Mori, Yoichiro},
    journal = {PLOS Computational Biology},
    publisher = {Public Library of Science},
    title = {An electrodiffusive network model with multicompartmental neurons and synaptic connections},
    year = {2024},
    month = {11},
    volume = {20},
    url = {https://doi.org/10.1371/journal.pcbi.1012114},
    pages = {1-33},
    number = {11}
}