Tubular Network Formation Process Using 3D Cellular Potts Model

Svoboda, David; Nečasová, Tereza; Tesařová, Lenka; Šimara, Pavel

doi:10.1007/978-3-030-00536-8_10

Cited by 4 publications

(3 citation statements)

References 13 publications

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“…Vertex models have been developed to specifically represent epithelia in 3D, but without resolving the complex irregular shapes of epithelial cells [64,[75][76][77]. In 2D, several vertex-based models with higher cell boundary resolution have been developed to enable more complex cell shapes [78][79][80][81][82], and to represent individual cell boundaries and the interstitial volume [83][84][85][86]. A recent hybrid version between a spheroid and a vertex model allows for a 3D vertex model with an intermediate vertex that enables a neighbour transition along the apical-basal axis [87].…”

Section: Discussion: Towards 3d Cell-based Tissue Simulations Of Epit...mentioning

confidence: 99%

3D Organisation of Cells in Pseudostratified Epithelia

Iber

Vetter

2022

Front. Phys.

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Pseudostratified epithelia have smooth apical and basal surfaces, yet along the apical-basal axis, cells assume highly irregular shapes, which we introduce as punakoids. They interact dynamically with many more cells than visible at the surface. Here, we review a recently developed new perspective on epithelial cell organisation. Seemingly random at first sight, the cell packing configurations along the entire apical-basal axis follow fundamental geometrical relationships, which minimise the lateral cell-cell contact energy for a given cross-sectional cell area variability. The complex 3D cell neighbour relationships in pseudostratified epithelia thus emerge from a simple physical principle. This paves the way for the development of data-driven 3D simulation frameworks that will be invaluable in the simulation of epithelial dynamics in development and disease.

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Section: Discussion: Towards 3d Cell-based Tissue Simulations Of Epit...mentioning

confidence: 99%

3D Organisation of Cells in Pseudostratified Epithelia

Iber

Vetter

2022

Front. Phys.

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“…LMM were applied in [86] to images of tubular network of endothelial cells. For assessment of the effect of being an image from a group of real or synthetic dataset, two standard measures were chosen: box counting fractal dimension and lacunarity [87,88], both describing the complexity of the structures depicted in the analyzed images.…”

Section: Linear Mixed Modelsmentioning

confidence: 99%

Validation and evaluation metrics for medical and biomedical image synthesis

Nečasová

Burgos

Svoboda

2022

Biomedical Image Synthesis and Simulation

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“…Another line of work targeting the generation of realistic cell models exists with focus on cell images with realistic shape and texture [30], [32], data based modeling [22], modeling of sub-cellular structures [21] and filopodia [27], as well as cell population simulation [25], [32]. There are also specialized works for the simulation of cells in colon tissue [29] and of tubular network formation [31]. Modeling and generation of neurons [4], [23], [33] is of special interest due to the Fig.…”

Section: Introductionmentioning

confidence: 99%