Programmability of Chemical Reaction Networks

Motivated by the intriguing complexity of biochemical circuitry within individual cells we study Stochastic Chemical Reaction Networks (SCRNs), a formal model that considers a set of chemical reactions acting on a finite number of molecules in a well-stirred solution according to standard chemical kinetics equations. SCRNs have been widely used for describing naturally occurring (bio)chemical systems, and with the advent of synthetic biology they become a promising language for the design of artificial biochemical circuits. Our interest here is the computational power of SCRNs and how they relate to more conventional models of computation. We survey known connections and give new connections between SCRNs and Boolean Logic Circuits, Vector Addition Systems, Petri Nets, Gate Implementability, Primitive Recursive Functions, Register Machines, Fractran, and Turing Machines. A theme to these investigations is the thin line between decidable and undecidable questions about SCRN behavior

Computation in Economics

This is an attempt at a succinct survey, from methodological and epistemological perspectives, of the burgeoning, apparently unstructured, field of what is often – misleadingly – referred to as computational economics. We identify and characterise four frontier research fields, encompassing both micro and macro aspects of economic theory, where machine computation play crucial roles in formal modelling exercises: algorithmic behavioural economics, computable general equilibrium theory, agent based computational economics and computable economics. In some senses these four research frontiers raise, without resolving, many interesting methodological and epistemological issues in economic theorising in (alternative) mathematical modesClassical Behavioural Economics, Computable General Equilibrium theory, Agent Based Economics, Computable Economics, Computability, Constructivity, Numerical Analysis

The Epistemology of Simulation, Computation and Dynamics in Economics Ennobling Synergies, Enfeebling 'Perfection'

Lehtinen and Kuorikoski ([73]) question, provocatively, whether, in the context of Computing the Perfect Model, economists avoid - even positively abhor - reliance on simulation. We disagree with the mildly qualified affirmative answer given by them, whilst agreeing with some of the issues they raise. However there are many economic theoretic, mathematical (primarily recursion theoretic and constructive) - and even some philosophical and epistemological - infelicities in their descriptions, definitions and analysis. These are pointed out, and corrected; for, if not, the issues they raise may be submerged and subverted by emphasis just on the unfortunate, but essential, errors and misrepresentationsSimulation, Computation, Computable, Analysis, Dynamics, Proof, Algorithm

A Primer on the Tools and Concepts of Computable Economics

Computability theory came into being as a result of Hilbert's attempts to meet Brouwer's challenges, from an intuitionistc and constructive standpoint, to formalism as a foundation for mathematical practice. Viewed this way, constructive mathematics should be one vision of computability theory. However, there are fundamental differences between computability theory and constructive mathematics: the Church-Turing thesis is a disciplining criterion in the former and not in the latter; and classical logic - particularly, the law of the excluded middle - is not accepted in the latter but freely invoked in the former, especially in proving universal negative propositions. In Computable Economic an eclectic approach is adopted where the main criterion is numerical content for economic entities. In this sense both the computable and the constructive traditions are freely and indiscriminately invoked and utilised in the formalization of economic entities. Some of the mathematical methods and concepts of computable economics are surveyed in a pedagogical mode. The context is that of a digital economy embedded in an information society

The Machine as Data: A Computational View of Emergence and Definability

Turing’s (Proceedings of the London Mathematical Society 42:230–265, 1936) paper on computable numbers has played its role in underpinning different perspectives on the world of information. On the one hand, it encourages a digital ontology, with a perceived flatness of computational structure comprehensively hosting causality at the physical level and beyond. On the other (the main point of Turing’s paper), it can give an insight into the way in which higher order information arises and leads to loss of computational control—while demonstrating how the control can be re-established, in special circumstances, via suitable type reductions. We examine the classical computational framework more closely than is usual, drawing out lessons for the wider application of information–theoretical approaches to characterizing the real world. The problem which arises across a range of contexts is the characterizing of the balance of power between the complexity of informational structure (with emergence, chaos, randomness and ‘big data’ prominently on the scene) and the means available (simulation, codes, statistical sampling, human intuition, semantic constructs) to bring this information back into the computational fold. We proceed via appropriate mathematical modelling to a more coherent view of the computational structure of information, relevant to a wide spectrum of areas of investigation