Modeling long-range Wnt signaling with the domain-specific language ML-Rules

Budde, Kai and Helms, Tobias and Haack, Fiete and Uhrmacher, Adelinde M. (2018) Modeling long-range Wnt signaling with the domain-specific language ML-Rules. In: Workshop on "Multiscale modeling and simulations to bridge molecular and cellular scales" of the Centro di Ricerca Matematica Ennio De Giorgi, 1-5 Oct 2018, Pisa, Italy. Poster.

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Wnt signaling plays a crucial role in embryogenesis and tissue homeostasis. Wnt ligands are lipid-modified proteins and highly hydrophobic. Therefore, they are not subject to free diffusion and it still remains an open question how Wnt signaling is achieved on larger (tissue-) scales. We are presenting the first version of a stochastic model that combines intra- and inter-cellular dynamics of Wnt signaling. The latter considers mechanisms of autocrine and paracrine signaling as well as cross-talk with cadherin signaling. In our model, cells are aligned in a one-dimensional spatial grid and Wnt molecules are being transported within vesicles from one cell to another. The model has been defined in the domain-specific language ML-Rules and is simulated based on the reaction-diffusion master equation. We illuminate the features of the language that facilitate the definition of compartmental dynamics (e.g., as needed for proliferating cells) and of complex dynamics (e.g., as needed to describe the diffusion of vesicles along neighboring grid cells). Further, we discuss limitations of our model and of the language referring to its spatial accuracy.

Item Type: Conference or Workshop Item (Poster)
Projects: LaCE

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