Related papers: Differences in boundary behavior in the 3D vertex …
Morphogenesis involves complex shape changes of biological tissues. Yet, tissue shape changes depend on tissue rheology, which in turn arises from the interplay of large numbers of cells. Here, we link cell- and tissue-scale mechanics by…
Multiphase field models have emerged as an important computational tool for understanding biological tissue while resolving single-cell properties. While they have successfully reproduced many experimentally observed behaviors of living…
Over the last two decades, scientific literature has been blooming with various means of simulating epithelial cell colonies. Each of these simulations can be separated by their respective efficiency (expressed in terms of consumed…
The Voronoi diagrams are an important tool having theoretical and practical applications in a large number of fields. We present a new procedure, implemented as a set of CUDA kernels, which detects, in a general and efficient way,…
Epithelial tissues act as barriers and, therefore, must repair themselves, respond to environmental changes and grow without compromising their integrity. Consequently, they exhibit complex viscoelastic rheological behavior where…
We derive a mesoscopic modeling and simulation technique that is very close to the technique known as dissipative particle dynamics. The model is derived from molecular dynamics by means of a systematic coarse-graining procedure. Thus the…
Modern artificial neural networks, including convolutional neural networks and vision transformers, have mastered several computer vision tasks, including object recognition. However, there are many significant differences between the…
This study addresses the challenge of classifying cell shapes from noisy contours, such as those obtained through cell instance segmentation of histological images. We assess the performance of various features for shape classification,…
We study Voronoi cells in the statistical setting by considering preimages of the maximum likelihood estimator that tessellate an open probability simplex. In general, logarithmic Voronoi cells are convex sets. However, for certain…
Eukaryotic cells are characterized by a stiff nucleus whose effect in modeling the collective behavior of cell aggregates is usually underestimated. However, increasing experimental evidence links nuclear modifications with phenotypic…
Biological cells in soft materials can be modeled as anisotropic force contraction dipoles. The corresponding elastic interaction potentials are long-ranged ($\sim 1/r^3$ with distance $r$) and depend sensitively on elastic constants,…
Cellular structures must organize themselves within strict physical constraints, operating with finite resources and well-defined boundaries. Classical systems demonstrate only passive responses to boundaries, from surface energy…
An adequate control of cell response in tissue engineering applications is of utmost importance to obtain products suitable to clinical practice. This paper is the first part of a series of two connected publications in which we study via…
In stark contrast to the case of images, finding a concise, learnable discrete representation of 3D surfaces remains a challenge. In particular, while polygon meshes are arguably the most common surface representation used in geometry…
The growth of several biological tissues is known to be controlled in part by local geometrical features, such as the curvature of the tissue interface. This control leads to changes in tissue shape that in turn can affect the tissue's…
We study logarithmic Voronoi cells for linear statistical models and partial linear models. The logarithmic Voronoi cells at points on such model are polytopes. To any $d$-dimensional linear model inside the probability simplex…
The Voronoi diagram-based dual-front active contour models are known as a powerful and efficient way for addressing the image segmentation and domain partitioning problems. In the basic formulation of the dual-front models, the evolving…
We study the sizes of the Voronoi cells of $k$ uniformly chosen vertices in a random split tree of size $n$. We prove that, for $n$ large, the largest of these $k$ Voronoi cells contains most of the vertices, while the sizes of the…
Voronoi tessellations of scale-invariant fractal sets are characterized by topological and metrical properties that are significantly different from those of natural cellular structures. As an example we analyze Voronoi diagrams of…
Cells coexist together in colonies or as tissues. Their behaviour is controlled by an interplay between intercellular forces and biochemical regulation. We develop a simple model of the cell cycle, the fundamental regulatory network…