Zobrazeno 1 - 10
of 53
pro vyhledávání: '"Del Razo, Mauricio J."'
Complex systems are composed of many particles or agents that move and interact with one another. The underlying mathematical framework to model many of these systems must incorporate the spatial transport of particles and their interactions, as well
Externí odkaz:
http://arxiv.org/abs/2409.13377
Autor:
del Razo, Mauricio J.
Reaction-diffusion processes are the foundational model for a diverse range of complex systems, ranging from biochemical reactions to social agent-based phenomena. The underlying dynamics of these systems occur at the individual particle/agent level,
Externí odkaz:
http://arxiv.org/abs/2404.07119
A varying number of particles is the most relevant characteristic of systems of interest in nature and technology; ranging from the exchange of energy and matter with the surrounding environment to the change of particle numbers through internal dyna
Externí odkaz:
http://arxiv.org/abs/2403.14517
Publikováno v:
J. Chem. Phys. 160, 024108 2024
Simulations of condensed matter systems often focus on the dynamics of a few distinguished components but require integrating the dynamics of the full system. A prime example is a molecular dynamics simulation of a (macro)molecule in solution, where
Externí odkaz:
http://arxiv.org/abs/2306.17672
Cooperative dynamics are central to our understanding of many phenomena in living and complex systems. However, we lack a universal mechanism to explain the emergence of cooperation. We present a novel framework for modelling social dilemma games wit
Externí odkaz:
http://arxiv.org/abs/2306.05971
We propose a solution formula for chemical diffusion master equations of birth and death type. These equations, proposed and formalized in the recent paper [5], aim at incorporating the spatial diffusion of molecules into the description provided by
Externí odkaz:
http://arxiv.org/abs/2302.10700
Publikováno v:
J. Math. Phys. 64, 013304 (2023)
The chemical diffusion master equation (CDME) describes the probabilistic dynamics of reaction--diffusion systems at the molecular level [del Razo et al., Lett. Math. Phys. 112:49, 2022]; it can be considered the master equation for reaction--diffusi
Externí odkaz:
http://arxiv.org/abs/2210.02268
Autor:
del Razo, Mauricio J., Frömberg, Daniela, Straube, Arthur V., Schütte, Christof, Höfling, Felix, Winkelmann, Stefanie
Publikováno v:
Lett. Math. Phys. 112, 49 (2022)
The modeling and simulation of stochastic reaction-diffusion processes is a topic of steady interest that is approached with a wide range of methods. \rev{At the level of particle-resolved descriptions, where chemical reactions are coupled to the spa
Externí odkaz:
http://arxiv.org/abs/2109.13616
Publikováno v:
J. Chem. Phys. 155, 124109 (2021)
A novel approach to simulate simple protein-ligand systems at large time- and length-scales is to couple Markov state models (MSMs) of molecular kinetics with particle-based reaction-diffusion (RD) simulations, MSM/RD. Currently, MSM/RD lacks a mathe
Externí odkaz:
http://arxiv.org/abs/2103.06889
Open biochemical systems of interacting molecules are ubiquitous in life-related processes. However, established computational methodologies, like molecular dynamics, are still mostly constrained to closed systems and timescales too small to be relev
Externí odkaz:
http://arxiv.org/abs/2006.00003