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Papers with code

A list of repositories used in research in the Scientific Computing Department follows. A link to relevant publications/preprints is referenced.

2025

2024

2023

2022

2021

2018

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References
  1. Aróstica, R., Nolte, D., Brown, A., Gebauer, A., Karabelas, E., Jilberto, J., Salvador, M., Bucelli, M., Piersanti, R., Osouli, K., Augustin, C., Finsberg, H., Shi, L., Hirschvogel, M., Pfaller, M., Africa, P. C., Gsell, M., Marsden, A., Nordsletten, D., … Bertoglio, C. (2025). A software benchmark for cardiac elastodynamics. Computer Methods in Applied Mechanics and Engineering, 435, 117485. https://doi.org/10.1016/j.cma.2024.117485
  2. Lunsonga, L. C., Fatehi, M., Long, W., Barr, A. J., Gruber, B., Chattopadhyay, A., Barakat, K., Edwards, A. G., & Light, P. E. (2025). The sodium/glucose cotransporter 2 inhibitor Empagliflozin inhibits long QT 3 late sodium currents in a mutation specific manner. Journal of Molecular and Cellular Cardiology, 198, 99–111. https://doi.org/10.1016/j.yjmcc.2024.11.014
  3. Sætra, M. J., & Mori, Y. (2024). An electrodiffusive network model with multicompartmental neurons and synaptic connections. PLOS Computational Biology, 20(11), 1–33. 10.1371/journal.pcbi.1012114
  4. Finsberg, H. N. T., Charwat, V., Healy, K. E., & Wall, S. (2024). Automatic motion estimation with applications to hiPSC-CMs. Biomedical Physics & Engineering Express. 10.1088/2057-1976/ad7268
  5. Odeigah, O. O., Kwan, E. D., Garcia, K. M., Finsberg, H., Valdez-Jasso, D., & Sundnes, J. (2024). A computational study of right ventricular mechanics in a rat model of pulmonary arterial hypertension. Frontiers in Physiology, 15, 1360389.
  6. Zapf, B., Haubner, J., Baumgärtner, L., & Schmidt, S. (2023). Medical image registration using optimal control of a linear hyperbolic transport equation with a DG discretization.
  7. Sætra, M. J., Ellingsrud, A. J., & Rognes, M. E. (2023). Neural activity induces strongly coupled electro-chemo-mechanical interactions and fluid flow in astrocyte networks and extracellular space–A computational study. PLOS Computational Biology, 19(7), 1–31. 10.1371/journal.pcbi.1010996
  8. Haubner, J., Neumann, F., & Ulbrich, M. (2023). A Novel Density Based Approach for Topology Optimization of Stokes Flow. SIAM Journal on Scientific Computing, 45(2), A338–A368. 10.1137/21M143114X
  9. Gjerde, I. G., Rognes, M. E., & Sánchez, A. L. (2023). The directional flow generated by peristalsis in perivascular networks–Theoretical and numerical reduced-order descriptions. Journal of Applied Physics, 134(17), 174701. 10.1063/5.0160334
  10. Poulain, A., Riseth, J., & Vinje, V. (2022). Multi-compartmental model of glymphatic clearance of solutes in brain tissue. https://hal.archives-ouvertes.fr/hal-03789563
  11. Daversin-Catty, C., Gjerde, I. G., & Rognes, M. E. (2022). Geometrically Reduced Modelling of Pulsatile Flow in Perivascular Networks. Frontiers in Physics, 10. 10.3389/fphy.2022.882260
  12. Gjerde, I., & Scott, L. (2022). Nitsche’s method for Navier–Stokes equations with slip boundary conditions. Mathematics of Computation, 91(334), 597–622. 10.1090/mcom/3682
  13. Budisa, A., Hu, X., Kuchta, M., Mardal, K.-A., & Zikatanov, L. (2022). HAZniCS – Software Components for Multiphysics Problems. arXiv. 10.48550/ARXIV.2210.13274
  14. Sætra, M. J., Einevoll, G. T., & Halnes, G. (2021). An electrodiffusive neuron-extracellular-glia model for exploring the genesis of slow potentials in the brain. PLOS Computational Biology, 17(7), 1–45. 10.1371/journal.pcbi.1008143
  15. Finsberg, H., Xi, C., Tan, J. L., Zhong, L., Genet, M., Sundnes, J., Lee, L. C., & Wall, S. T. (2018). Efficient estimation of personalized biventricular mechanical function employing gradient-based optimization. International Journal for Numerical Methods in Biomedical Engineering, 34(7), e2982. https://doi.org/10.1002/cnm.2982