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A ternary reaction-diffusion model for early HIV infection dynamics, incorporating logistic growth of target cells, is introduced. According to in vitro and in vivo studies, random movement of target cells, infected cells, and virions and a…

Mathematical models have been widely used to describe the collective movement of bacteria by chemotaxis. In particular, bacterial concentration waves traveling in a narrow channel have been experimentally observed and can be precisely…

We consider the task of identifying the causal parents of a target variable among a set of candidates from observational data. Our main assumption is that the candidate variables are observed in different environments which may, under…

Cellular phenotype is characterized by different components such as cell size, protein content and cell cycle time. These are global variables that are the outcome of multiple internal microscopic processes. Accordingly, they display some…

Predicting the effects of chemical and genetic perturbations on quantitative cell states is a central challenge in computational biology, molecular medicine and drug discovery. Recent work has leveraged large-scale single-cell data and…

How motile bacteria move near a surface is a problem of fundamental biophysical interest and is key to the emergence of several phenomena of biological, ecological and medical relevance, including biofilm formation. Solid boundaries can…

We analyze ecological systems that are influenced by random environmental fluctuations. We first provide general conditions which ensure that the species coexist and the system converges to a unique invariant probability measure (stationary…

We extend a recently introduced prototypical stochastic model describing uniformly the search and return of objects looking for new food sources around a given home. The model describes the kinematic motion of the object with constant speed…

The problem of tracking the source of a passive scalar in a turbulent flow is relevant to flying insect behavior and several other applications. Extensive previous work has shown that certain Bayesian strategies, such as "infotaxis," can be…

In nature, estimating the location of a molecule source in turbulent airflow is a central, and yet highly challenging problem for mate search and foraging. Recently, it has also received increasing attention in synthetic molecular…

We investigate the information-theoretical limits of inference tasks in epidemic spreading on graphs in the thermodynamic limit. The typical inference tasks consist in computing observables of the posterior distribution of the epidemic…

Single-particle traces of the diffusive motion of molecules, cells, or animals are by-now routinely measured, similar to stochastic records of stock prices or weather data. Deciphering the stochastic mechanism behind the recorded dynamics…

Bacteria possess diverse mechanisms to regulate their motility in response to environmental and physiological signals, enabling them to navigate complex habitats and adapt their behavior. Among these mechanisms, interspecies recognition…

This paper deals with the micro-macro derivation of virus models coupled with a reaction diffusion models that generates the dynamics in space of the virus particles. The first part of the presentation focuses, starting from [5, 6] on a…

Bacterial cells navigate around their environment by directing their movement along chemical gradients. This process, known as chemotaxis, can promote the rapid expansion of bacterial populations into previously unoccupied territories.…

Inputs to signaling pathways can have complex statistics that depend on the environment and on the behavioral response to previous stimuli. Such behavioral feedback is particularly important in navigation. Successful navigation relies on…

Microbial communities play a significant role in bioremediation,plant growth,human and animal digestion,global elemental cycles including the carbon-cycle,and water treatment.They are also posed to be the engines of renewable energy via…

The movement of molecules inside living cells is a fundamental feature of biological processes. The ability to both observe and analyse the details of molecular diffusion in vivo at the single molecule and single cell level can add…

Metabolomic based approaches have gained much attention in recent years due to their promising potential to deliver objective tools for assessment of food intake. In particular, multiple biomarkers have emerged for single foods. However,…

Statistical inference is central to many scientific endeavors, yet how it works remains unresolved. Answering this requires a quantitative understanding of the intrinsic interplay between statistical models, inference methods and data…