Related papers: Increased accuracy of ligand sensing by receptor i…
During cell migration, cells become polarized, change their shape, and move in response to various internal and external cues. Cell polarization is defined through the spatio-temporal organization of molecules such as PI3K or small GTPases,…
Enveloped viruses enter host cells either through endocytosis, or by direct fusion of the viral membrane envelope and the membrane of the host cell. However, some viruses, such as HIV-1, HSV-1, and Epstein-Barr can enter a cell through…
Here we characterized an information measure for cell polarity that applies to non-motile cells responding to a chemical gradient. The central idea is that polarization represents information about the direction of the gradient. We applied…
Structure based ligand discovery is one of the most successful approaches for augmenting the drug discovery process. Currently, there is a notable shift towards machine learning (ML) methodologies to aid such procedures. Deep learning has…
Accurate gradient sensing is crucial for efficient chemotaxis in noisy environments, but the relationship between cell shape deformations and sensing accuracy is not well understood. Using a theoretical framework based on maximum likelihood…
Can large language models introspect, that is, accurately detect perturbations to their own internal states? We systematically investigate this question using activation steering in Meta-Llama-3.1-8B-Instruct. First, we show that the binary…
Biological sensory receptors provide excellent examples of microscopic scale information transduction amidst stochastic noise. We argue that stochasticity is not always a hindrance to sensing. Instead, it could allow a single stochastic…
Molecular signalling in living cells occurs at low copy numbers and is thereby inherently limited by the noise imposed by thermal diffusion. The precision at which biochemical receptors can count signalling molecules is intimately related…
Roughly half of a cells proteins are located at or near the plasma membrane. In this restricted space the cell senses its environment, signals to its neighbors and ex-changes cargo through exo- and endocytotic mechanisms. Ligands bind to…
We present and analyse a model for cell signalling processes in biological tissues. The model includes diffusion and nonlinear reactions on the cell surfaces, and both inter- and intracellular signalling. Using techniques from the theory of…
Cells generally convert nutrient resources to useful products via energy transduction. Accordingly, the thermodynamic efficiency of this conversion process is one of the most essential characteristics of living organisms. However, although…
One of the great challenges in biology is to observe, at sufficient detail, the real-time workings of the cell. Many methods exist to do cell measurements invasively. For example, mass spectrometry has tremendous mass sensitivity but…
Metastasis is a process of cell migration that can be collective and guided by chemical cues. Viewing metastasis in this way, as a physical phenomenon, allows one to draw upon insights from other studies of collective sensing and migration…
We study a chemotaxis-consumption mechanism, in which some chemical signal and cells density interact each other. In order to control the concentration of such a population, sources involving gradient nonlinearities, which introduce a…
The utilization of multiple phosphorylation sites in regulating a biological response is ubiquitous in cell signaling. If each site contributes an additional, equivalent binding site, then one consequence of an increase in the number of…
A key challenge in systems biology is the elucidation of the underlying principles, or fundamental laws, which determine the cellular phenotype. Understanding how these fundamental principles are altered in diseases like cancer is important…
Data living on manifolds commonly appear in many applications. Often this results from an inherently latent low-dimensional system being observed through higher dimensional measurements. We show that under certain conditions, it is possible…
In the context of cellular networks, users located at the periphery of cells are particularly vulnerable to substantial interference from neighbouring cells, which can be represented as a two-user interference channel. This study introduces…
Integrins are allosteric cell adhesion receptors that control many important processes, including cell migration, proliferation, and apoptosis. Ligand binding activates integrins by stabilizing an integrin conformation with separated…
In multicellular organisms, cells coordinate their activities through cell-cell communication (CCC), which is crucial for development, tissue homeostasis, and disease progression. Recent advances in single-cell and spatial omics…