Related papers: The Computational Universality of Metabolic Comput…

Understanding the mechanisms of interactions within cells, tissues, and organisms is crucial to driving developments across biology and medicine. Mathematical modeling is an essential tool for simulating biological systems and revealing…

Many different definitions of computational universality for various types of dynamical systems have flourished since Turing's work. We propose a general definition of universality that applies to arbitrary discrete time symbolic dynamical…

Computer-aided design for synthetic biology promises to accelerate the rational and robust engineering of biological systems; it requires both detailed and quantitative mathematical and experimental models of the processes to (re)design,…

Metabolic networks consist of linked functional components, or modules. The mechanism underlying metabolic network modularity is of great interest not only to researchers of basic science but also to those in fields of engineering. Previous…

The aim of this paper is to propose an alternative behavioural definition of computation (and of a computer) based simply on whether a system is capable of reacting to the environment-the input-as reflected in a measure of programmability.…

We argue that traditional Western science cannot adequately describe sports and other types of human behavior. Then we make an argument why a complex adaptive systems approach has the potential to provide the foundation for such a theory.…

For the study of complex synthetic and biological molecular systems by computer simulations one is still restricted to simple model systems or to by far too small time scales. To overcome this problem multiscale techniques are being…

Epigenetic Tracking (ET) is an Artificial Embryology system which allows for the evolution and development of large complex structures built from artificial cells. In terms of the number of cells, the complexity of the bodies generated with…

There are enormous amount of examples of Computation in nature, exemplified across multiple species in biology. One crucial aim for these computations across all life forms their ability to learn and thereby increase the chance of their…

We advance a Bayesian concept of 'intrinsic asymptotic universality' taking to its final conclusions previous conceptual and numerical work based upon a concept of a reprogrammability test and an investigation of the complex qualitative…

In this paper we present an introduction to the area of computability in dynamical systems. This is a fairly new field which has received quite some attention in recent years. One of the central questions in this area is if relevant…

This paper presents the principal challenges and opportunities associated with computational biomechanics research. The underlying cognitive control involved in the process of human motion is inherently complex, dynamic, multidimensional,…

Metabolism and evolution are closely connected: if a mutation incurs extra energetic costs for an organism, there is a baseline selective disadvantage that may or may not be compensated for by other adaptive effects. A long-standing, but to…

Although reproducibility is a core tenet of the scientific method, it remains challenging to reproduce many results. Surprisingly, this also holds true for computational results in domains such as systems biology where there have been…

Many real-world dynamic systems, both natural and artificial, are understood to be performing computations. For artificial dynamic systems, explicitly designed to perform computation - such as digital computers - by construction, we can…

Unravelling current complex food systems is relevant for their adjustment and redesign under the current changing climate conditions. Redesign may be necessitated by migration of people and changes of locations of major agri-food…

Computing is a high-level process of a physical system. Recent interest in non-standard computing systems, including quantum and biological computers, has brought this physical basis of computing to the forefront. There has been, however,…

One of the main goals of Artificial Life is to research the conditions for the emergence of life, not necessarily as it is, but as it could be. Artificial Chemistries are one of the most important tools for this purpose because they provide…

We investigate the stability properties of two different classes of metabolic cycles using a combination of analytical and computational methods. Using principles from structural kinetic modeling (SKM), we show that the stability of…

In nature, biological organisms jointly evolve both their morphology and their neurological capabilities to improve their chances for survival. Consequently, task information is encoded in both their brains and their bodies. In robotics,…