Related papers: Geometry aware predictive models for exocytosis

Geometrical cues are known to play a very important role in neuronal growth and the formation of neuronal networks. Here, we present a detailed analysis of axonal growth and dynamics for neuronal cells cultured on patterned…

A single axon can generate branches connecting with plenty synaptic targets. Process of branching is very important for making connections in central nervous system. The interstitial branching along primary axon shaft occurs during nervous…

Intercellular signaling has an important role in organism development, but not all communication occurs using the same mechanism. Here, we analyze the energy efficiency of intercellular signaling by two canonical mechanisms: diffusion of…

Cellular contractility, migration, and extracellular matrix (ECM) mechanics are critical for a wide range of biological processes including embryonic development, wound healing, tissue morphogenesis, and regeneration. Even though the…

We discuss the formation of graded morphogen profiles in a cell layer by nonlinear transport phenomena, important for patterning developing organisms. We focus on a process termed transcytosis, where morphogen transport results from binding…

Phagocytosis is the fundamental cellular process by which eukaryotic cells bind and engulf particles by their cell membrane. Particle engulfment involves particle recognition by cell-surface receptors, signaling and remodeling of the actin…

We consider a Spatial Markov Chain model for the spread of viruses. The model is based on the principle to represent a graph connecting nodes, which represent humans. The vertices between the nodes represent relations between humans. In…

Women are at higher risk of Alzheimer's and other neurological diseases after menopause, and yet research connecting female brain health to sex hormone fluctuations is limited. We seek to investigate this connection by developing tools that…

Computational modeling of aerodynamics is a key problem in aerospace engineering, often involving flows interacting with solid objects such as airfoils. Deep surrogate models have emerged as purely data-driven approaches that learn direct…

In Diffusive Molecular Communication (DMC), information is transmitted by diffusing molecules. Synaptic signaling is a natural implementation of this paradigm. It is responsible for relaying information from one neuron to another, but also…

A cell is polarised when it has developed a main axis of organisation through the reorganisation of its cytosqueleton and its intracellular organelles. Polarisation can occur spontaneously or be triggered by external signals, like gradients…

During developmental processes such as embryogenesis, how a group of cells fold into specific structures, is a central question in biology that defines how living organisms form. Establishing tissue-level morphology critically relies on how…

The dynamics of higher-order topological signals are increasingly recognized as a key aspect of the activity of complex systems. A paradigmatic example are synaptic dynamics: synaptic efficacy changes over time driven by different…

Recent biological experiments have shown that certain types of cells are able to move in structured and confined environment even without the activation of focal adhesion. Focusing on this particular phenomenon and based on previous works,…

Interactions between neighboring cells are essential for generating or refining patterns in a number of biological systems. We propose a discrete filtering approach to predict how networks of cells modulate spatially varying input signals…

While large language models (LLMs) are trained purely on textual data, prior work has shown that their internal representations can exhibit rich geometric structure in embedding space. Building on this line of work, we investigate whether…

Cardiac myocytes are the fundamental cells composing the heart muscle. The propagation of electric signals and chemical quantities through them is responsible for their nonlinear contraction and dilatation. In this study, a theoretical…

Atomic structures and adatom geometries of surfaces encode information about the thermodynamics and kinetics of the processes that lead to their formation, and which can be captured by a generative physical model. Here we develop a workflow…

Understanding processes in porous media is fundamental to a broad spectrum of environmental, energy, and geoscience applications. These processes include multiphase fluid transport, interfacial dynamics, reactive transformations, and…

Artificial neural networks (ANNs) are powerful tools capable of approximating any arbitrary mathematical function, but their interpretability remains limited, rendering them as black box models. To address this issue, numerous methods have…