Related papers: Disconnection Rules are Complete for Chemical Reac…
Understanding the emergent behavior of chemical reaction networks (CRNs) is a fundamental aspect of biology and its origin from inanimate matter. A closed CRN monotonically tends to thermal equilibrium, but when it is opened to external…
Reactions are an important tool to study nuclear structure and for extracting reactions relevant for astrophysics. In this paper we focus on deuteron induced reactions which can provide information on neutron shell evolution as well as…
We consider stochastic descriptions of chemical reaction networks in which there are both fast and slow reactions, and for which the time scales are widely separated. We develop a computational algorithm that produces the generator of the…
The paper studies a cluster of systems for fully disquotational truth based on the restriction of initial sequents. Unlike well-known alternative approaches, such systems display both a simple and intuitive model theory and remarkable…
Persistency is the property, for differential equations in $\R^n$, that solutions starting in the positive orthant do not approach the boundary. For chemical reactions and population models, this translates into the non-extinction property:…
One approach to studying the system-wide organization of biochemistry is to use statistical graph theory. Even in such a heavily simplified method, which disregards most of the dynamic aspects of biochemistry, one is faced with fundamental…
We consider combustion problems in the presence of complex chemistry and nonlinear diffusion laws leading to fully nonlinear multispecies reaction-diffusion equations. We establish results of existence of solution and maximum principle,…
Since no fusion theory neither rule fully satisfy all needed applications, the author proposes a Unification of Fusion Theories and a combination of fusion rules in solving problems/applications. For each particular application, one selects…
We develop a thermodynamic framework for closed and open chemical networks applicable to non-elementary reactions that do not need to obey mass action kinetics. It only requires the knowledge of the kinetics and of the standard chemical…
Reaction networks are widely used models to describe biochemical processes. Stochastic fluctuations in the counts of biological macromolecules have amplified consequences due to their small population sizes. This makes it necessary to favor…
Extensive simulations are performed of the diffusion-limited reaction A$+$B$\to 0$ in one dimension, with initially separated reagents. The reaction rate profile, and the probability distributions of the separation and midpoint of the…
We study the global existence and uniform-in-time bounds of classical solutions in all dimensions to reaction-diffusion systems dissipating mass. By utilizing the duality method and the regularization of the heat operator, we show that if…
Process theories combine a graphical language for compositional reasoning with an underlying categorical semantics. They have been successfully applied to fields such as quantum computation, natural language processing, linear dynamical…
This article characterizes certain small multistationary chemical reaction networks. We consider the set of fully open networks, those for which all chemical species participate in inflow and outflow, containing one non-flow (reversible or…
The method proposed by Pratt to derive recursion relations for systems of degenerate fermions [Phys. Rev. Lett. 84, 4255 (2000), arXiv:nucl-th/9905055] relies on diagrammatic techniques. This efficient formalism assumes no explicit two-body…
For the investigation of chemical reaction networks, the identification of all relevant intermediates and elementary reactions is mandatory. Many algorithmic approaches exist that perform explorations efficiently and automatedly. These…
Diagram chasing is not an easy task. The coherence holds in a generalized sense if we have a mechanical method to judge whether given two morphisms are equal to each other. A simple way to this end is to reform a concerned category into a…
In this and a companion paper we outline a general framework for the thermodynamic description of open chemical reaction networks, with special regard to metabolic networks regulating cellular physiology and biochemical functions. We first…
Rule mining is an effective approach for reasoning over knowledge graph (KG). Existing works mainly concentrate on mining rules. However, there might be several rules that could be applied for reasoning for one relation, and how to select…
Many biochemical and industrial applications involve complicated networks of simultaneously occurring chemical reactions. Under the assumption of mass action kinetics, the dynamics of these chemical reaction networks are governed by systems…