With my research, I want to answer questions in biology using mathematical tools. I have worked on mechanical models in developmental biology (epithelial-to-mesenchymal transitions), muscle dynamics, molecular dynamics and phage-bacterial interactions.
My mathematical toolset includes mathematical modelling with ordinary, stochastic and partial differential equations. An emphasis lies on constrained systems such as differential inclusions and differential-algebraic equations. My key experties is the implementation of efficient numerical simulations for such models and the development of models in collaboration with biologists.
Our standalone EMT simulator is online: semtor.github.io.
See also the corresponding preprint Modelling variability and heterogeneity of EMT scenarios highlights nuclear positioning and protrusions as main drivers of extrusion for more details.
S. Plunder, C. Danesin, B. Glise, M. A. Ferreira, S. Merino-Aceituno, E. Theveneau, Modelling variability and heterogeneity of EMT scenarios highlights nuclear positioning and protrusions as main drivers of extrusion. (2023) bioRxiv.
S. Plunder, M. Burkard, U. Lauer, S. Venturelli, L. Marongiu, Determination of phage load and administration time in simulated occurrences of antibacterial treatments. Frontiers of Medicine, (2022). DOI: 10.3389/fmed.2022.1040457.
S. Plunder, B. Simeon, Coupled Systems of Linear Differential-Algebraic and Kinetic Equations with Application to the Mathematical Modelling of Muscle Tissue. In: Reis, T., Grundel, S., Schöps, S. (eds) Progress in Differential-Algebraic Equations II. Differential-Algebraic Equations Forum. Springer, Cham. (2020). DOI: 10.1007/978-3-030-53905-4_12, arxiv.
I am currently making various tools for agent-based modelling available as Julia packages.