Published Models

Introduction Human induced pluripotent stem cells (hiPSCs) can be grown in cell culture where they self-organize spatial patterns. Libby et al. have employed inducible CRISPR interference-driven genetic perturbations to modulate mechanical cell properties like cell-cell adhesion and cortical tension.

Spatio-temporal model of self-organisation inside the zebrafish posterior lateral line primordium Introduction The zebrafish posterior lateral line primordium is the precursor of the neuromasts, which form sensory organs responding to fluid flow.

Introduction This model combines simple Notch signaling with the cellular Potts model (CPM), which drives cell sorting as a result of differential adhesion. Model details are contained in the reference Mulberry and Keshet, 2020.

Introduction This model combines simple Notch signaling with the cellular Potts model (CPM), which drives cell sorting as a result of differential adhesion. Model details are contained in the reference Mulberry and Keshet, 2020.

Introduction This model combines simple Notch signaling with the cellular Potts model (CPM), which drives cell sorting as a result of differential adhesion. Model details are contained in the reference Mulberry and Keshet, 2020.

Spatio-temporal model of BMP signaling Introduction Juxtaposed sources of bone morphogenetic protein (BMP) and Nodal signaling molecules induce the formation of a full body axis in zebrafish embryos. Soh et al.

Spatio-temporal model of planar polarity regulation during planarian regeneration Introduction This simulation reproduces Figure 4D of the referenced paper. Parameter values correspond to the β-catenin-1(RNAi) pattern as given in Table S2 of the referenced paper.

Spatio-temporal model of planar polarity regulation during planarian regeneration Introduction This simulation reproduces Figure 4C of the referenced paper. Parameter values correspond to the wild type pattern (control) as given in Table S2 of the referenced paper.

Mutual Zonated Interactions of Wnt and Hh Signaling Are Orchestrating the Metabolism of the Adult Liver in Mice and Human Reference This model is described in the peer-reviewed publication:

Bile Pressure Drives YAP Signaling During Liver Regeneration Introduction During development and regeneration, tissues must grow to the proper size. But tissue growth is just the result of independent cell cycle control systems in the individual cells.