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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…
Grid cells in the entorhinal cortex fire when animals that are exploring a certain region of space occupy the vertices of a triangular grid that spans the environment. Different neurons feature triangular grids that differ in their…
Cortical thickness measurements from magnetic resonance imaging, an important biomarker in many neurodegenerative and neurological disorders, are derived by many tools from an initial voxel-wise tissue segmentation. White matter (WM)…
Studying the cellular architecture of the human cerebral cortex is critical for understanding brain organization and function. It requires investigating complex texture patterns in histological images, yet automatic methods that scale…
Deep learning has led to significant advances in artificial intelligence, in part, by adopting strategies motivated by neurophysiology. However, it is unclear whether deep learning could occur in the real brain. Here, we show that a deep…
Continuum bone remodelling is an important tool for predicting the effects of mechanical stimuli on bone density evolution. While the modelling of only cancellous bone is considered in many studies based on continuum bone remodelling, this…
Macroscopic studies of cortical tissue reveal a prevalence of oscillatory activity, that reflect a fine tuning of neural interactions. This research extends neural field theories by incorporating generalized oscillatory dynamics into…
How do cells tune emergent properties at the scale of tissues? One class of such emergent behaviors are rigidity transitions, in which a tissue changes from a solid-like to a fluid-like state or vice versa. Here, we introduce a new way for…
When considering flows in biological membranes, they are usually treated as flat, though more often than not, they are curved surfaces, even extremely curved, as in the case of the endoplasmic reticulum. Here, we study the topological…
Computational neuroimaging involves analyzing brain images or signals to provide mechanistic insights and predictive tools for human cognition and behavior. While diffusion models have shown stability and high-quality generation in natural…
This article deals with flow of plane curves driven by the curvature and external force. We make use of such a geometric flow for the purpose of image segmentation. A parametric model for evolving curves with uniform and curvature adjusted…
Deep neural networks have been demonstrated to achieve phenomenal success in many domains, and yet their inner mechanisms are not well understood. In this paper, we investigate the curvature of image manifolds, i.e., the manifold deviation…
The vertex model is widely used to describe the dynamics of epithelial tissues, because of its simplicity and versatility and the direct inclusion of biophysical parameters. Here, it is shown that quite generally, when cells modify their…
High resolution optical microscopy is essential in neuroscience but suffers from scattering in biological tissues. It therefore grants access to superficial layers only. Recently developed techniques use scattered photons for imaging by…
One major challenge of neuroscience is finding interesting structures in a seemingly disorganized neural activity. Often these structures have computational implications that help to understand the functional role of a particular brain…
To provide insight into the basic properties of emerging structures when bacteria or other microorganisms conquer surfaces, it is crucial to analyze their growth behavior during the formation of thin films. In this regard, many theoretical…
We examine the interaction of multigrid methods and shape optimization in appropriate shape spaces. Our aim is a scalable algorithm for application on supercomputers, which can only be achieved by mesh-independent convergence. The impact of…
The distances over which biological molecules and their complexes can function range from a few nanometres, in the case of folded structures, to millimetres, for example during chromosome organization. Describing phenomena that cover such…
We consider asymptotic dimension of coarse spaces. We analyse coarse structures induced by metrisable compactifications. We calculate asymptotic dimension of coarse cell complexes. We calculate the asymptotic dimension of certain negatively…
The organization of cells within tissues plays a vital role in various biological processes, including development and morphogenesis. As a result, understanding how cells self-organize in tissues has been an active area of research. In our…