Related papers: Identification of a chemotactic sensitivity in a c…
In chemical analysis made by laboratories one has the problem of determining the concentration of a chemical element in a sample. In order to tackle this problem the guide EURACHEM/CITAC recommends the application of the linear calibration…
The paper gives an account of a detailed investigation of the thermodynamic branch as a path of the chemical system deviation from its isolated thermodynamic equilibrium under an external impact. For a combination of direct and reverse…
This work presents a detailed covariance and correlation matrix analysis for experimentally measured cross sections obtained using the activation technique. Both statistical and systematic contributions to the covariance matrix were…
The present work was inspired by the recent developments in laboratory experiments made on chip, where culturing of multiple cell species was possible. The model is based on coupled reaction-diffusion-transport equations with chemotaxis,…
The discerning behavior of living systems relies on accurate interactions selected from the lot of molecular collisions occurring in the cell. To ensure the reliability of interactions, binding partners are classically envisioned as finely…
Micro-organisms aggregate through chemotaxis against a concentration gradient of signals secreted by themselves. We have numerically studied a model consisting of elements with intracellular dynamics, random walks with a state-dependent…
Local interactions among biomolecules, and the role played by their environment, have gained increasing attention in modelling biochemical reactions. By defining the automaton of molecular perceptions, we explore an agent-based…
This paper provides a unified mathematical analysis of a family of non-local diffuse interface models for tumor growth describing evolutions driven by long-range interactions. These integro-partial differential equations model cell-to-cell…
Hybrid models of chemotaxis combine agent-based models of cells with partial differential equation models of extracellular chemical signals. In this paper, travelling wave properties of hybrid models of bacterial chemotaxis are…
The bacterium E. coli maneuvers itself to regions with high chemoattractant concentrations by performing two stereotypical moves: `runs', in which it moves in near straight lines, and `tumbles', in which it does not advance but changes…
In this paper, a methodology is proposed that enables to analyze the sensitivity of the outcome of a therapy to unavoidable high dispersion of the patient specific parameters on one hand and to the choice of the parameters that define the…
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…
Microorganisms like bacteria can sense concentration of chemo-attractants in its medium very accurately. They achieve this through interaction between the receptors on their cell surface and the chemo-attractant molecules (like sugar). But…
The general scheme for the treatment of relaxation processes and temporal autocorrelations of dynamical variables for many particle systems is presented in framework of the recurrence relations approach. The time autocorrelation functions…
We propose a numerical technique for parameter inference in Markov models of biological processes. Based on time-series data of a process we estimate the kinetic rate constants by maximizing the likelihood of the data. The computation of…
Most of our understanding of bacterial chemotaxis comes from studies of Escherichia coli. However, recent evidence suggests significant departures from the E. coli paradigm in other bacterial species. This variation may stem from different…
This paper addresses a profoundly challenging inverse problem that has remained largely unexplored due to its mathematical complexity: the unique identification of all unknown coefficients in a coupled nonlinear system of mixed…
In this paper we develop a field-theoretic description for run and tumble chemotaxis, based on a density functional description of crystalline materials modified to capture orientational ordering. We show that this framework, with its…
Crystallization is a key step in macromolecular structure determination by crystallography. While a robust theoretical treatment of the process is available, due to the complexity of the system, the experimental process is still largely one…
To perform recognition, molecules must locate and specifically bind their targets within a noisy biochemical environment with many look-alikes. Molecular recognition processes, especially the induced-fit mechanism, are known to involve…