Related papers: A Concise and Formal Definition of RAF Sets and th…
It has been proposed that cultural evolution was made possible by a cognitive transition brought about by onset of the capacity for self-triggered recall and rehearsal. Here we develop a novel idea that models of collectively autocatalytic…
The introduction of automated vehicles without permanent human supervision demands a functional system description, including functional system boundaries and a comprehensive safety analysis. These inputs to the technical development can be…
Multiset rewriting systems provide a formalism particularly suitable for the description of biological systems. We present an extension of this formalism with additional controls on the derivations as a tool for reducing possible…
Reaction networks (RNs) comprise a set $X$ of species and a set $\mathscr{R}$ of reactions $Y\to Y'$, each converting a multiset of educts $Y\subseteq X$ into a multiset $Y'\subseteq X$ of products. RNs are equivalent to directed…
Chemical reaction networks describe interactions between biochemical species. Once an underlying reaction network is given for a biochemical system, the system dynamics can be modelled with various mathematical frameworks such as continuous…
An automatic sequence is a letter-to-letter coding of a fixed point of a uniform morphism. More generally, we have morphic sequences, which are letter-to-letter codings of fixed points of arbitrary morphisms. There are many examples where…
Reaction networks, or equivalently Petri nets, are a general framework for describing processes in which entities of various kinds interact and turn into other entities. In chemistry, where the reactions are assigned "rate constants", any…
Cellular automata provide a fascinating class of dynamical systems capable of diverse complex behavior. These include simplified models for many phenomena seen in nature. Among other things, they provide insight into self-organized…
The mathematical formalisms used to model biological systems induce both latent and ambiguous assumptions that can limit or distort their representational capabilities. Developing formalisms that can represent systems more precisely is…
Investigating a reactive chemical system with automated reaction network exploration algorithms provides a more detailed picture of its chemical mechanism than what would be accessible by manual investigation. In general, exploration…
To unveil the logic of cell from a level of chemical reaction dynamics, we need to clarify how ensemble of chemicals can autonomously produce the set of chemical, without assuming a specific external control echanism. A cell consists of a…
Recently it has been argued that autocatalytic theory could be applied to the origin of culture. Here possible application to a theory of meaning in the philosophy of language, called radical interpretation, is commented upon and compared…
The persistence conjecture is a long-standing open problem in chemical reaction network theory. It concerns the behavior of solutions to coupled ODE systems that arise from applying mass-action kinetics to a network of chemical reactions.…
Siphons in a chemical reaction system are subsets of the species that have the potential of being absent in a steady state. We present a characterization of minimal siphons in terms of primary decomposition of binomial ideals, we explore…
In this paper, a new kind of soft sets related with some common decision making problems in real life called central soft sets is introduced. Properties of some basic operations on central soft sets are shown. It is investigated that some…
The Explainable Abstract Trains Dataset is an image dataset containing simplified representations of trains. It aims to provide a platform for the application and research of algorithms for justification and explanation extraction. The…
Reaction systems are discrete dynamical systems that model biochemical processes in living cells using finite sets of reactants, inhibitors, and products. We investigate the computational complexity of a comprehensive set of problems…
A "numerical set-expression" is a term specifying a cascade of arithmetic and logical operations to be performed on sets of non-negative integers. If these operations are confined to the usual Boolean operations together with the result of…
This thesis broadly concerns the origins of life problem, pursuing a joint approach that combines general philosophical/conceptual reflection on the problem along with more detailed and formal scientific modelling work oriented in the…
By using the point model of reaction kinetics we have studied the stochastic properties of the lifetime of small systems controlled by autocatalytic reaction A+X -> X+X -> A+X, X -> B. Assuming that a system is living only when the number…