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A new model ecosystem consisting of many interacting species is introduced. The species are connected through a random matrix with a given connectivity. It is shown that the system is organized close to a boundary of marginal stability in…
An introductory guide to mathematical cosmology is given focusing on the issue of the genericity of various important results which have been obtained during the last thirty or so years. Some of the unsolved problems along with certain new…
This paper discusses the benefits of describing the world as information, especially in the study of the evolution of life and cognition. Traditional studies encounter problems because it is difficult to describe life and cognition in terms…
This is an essay that considering the knowledge structure and language of a different nature, attempts to build on an explanation of the object of study and characteristics of the mathematical science. We end up with a learning cycle of…
Life is fundamentally a scientific enigma. The interplay between chaos, entropy dynamics, and Prigogine's dissipative systems offers profound insights into the emergence, stabilization, and eventual collapse of far-from-equilibrium systems.…
Recently, a new concept, primitive chaos, was proposed, as a concept closely related to the fundamental problems of physics itself such as determinism, causality, free will, predictability, and irreversibility [J. Phys. Soc. Jpn. {\bf 79},…
Adaptation is a central topic in theoretical biology, of practical importance for analyzing drug resistance mutations. Several authors have used arguments based on extreme value theory in their work on adaptation. There are complications…
The problem of characterization of Gibbs random fields is considered. Various Gibbsianness criteria are obtained using the earlier developed one-point framework which in particular allows to describe random fields by means of either…
Biodiversity and extinction are central issues in evolution. Dynamical balance among different species in ecosystems is often described by deterministic replicator equations with moderate success. However, fluctuations are inevitable,…
The Gibbs Mixing Paradox is a conceptual touchstone for understanding mixtures in statistical mechanics. While debates over the theoretical subtleties of particle distinguishability continue to this day, we seek to extend the discussion in…
Microbial ecosystems are remarkably diverse, stable, and often consist of a balanced mixture of core and peripheral species. Here we propose a conceptual model exhibiting all these emergent properties in quantitative agreement with real…
Statistical mechanics is one of the most powerful and elegant tools in the quantitative sciences. One key virtue of statistical mechanics is that it is designed to examine large systems with many interacting degrees of freedom, providing a…
This text argues for the potential of machine learning infused classification systems as vectors for a technically-engaged and constructive technology critique. The text describes this potential with several experiments in image data…
Continuous adaptation allows survival in an ever-changing world. Adjustments in the synaptic coupling strength between neurons are essential for this capability, setting us apart from simpler, hard-wired organisms. How these changes can be…
The year of 2024 marks the 25th anniversary of the publication of evoloops, an evolutionary variant of Chris Langton's self-reproducing loops which proved constructively that Darwinian evolution of self-reproducing organisms by variation…
The climate system is a forced, dissipative, nonlinear, complex and heterogeneous system that is out of thermodynamic equilibrium. The system exhibits natural variability on many scales of motion, in time as well as space, and it is subject…
While evolution has inspired algorithmic methods of heuristic optimisation, little has been done in the way of using concepts of computation to advance our understanding of salient aspects of biological phenomena. We argue that under…
The paper develop a new approach to the justification of Gibbs canonical distribution for Hamiltonian systems with finite number of degrees of freedom. It uses the condition of nonintegrability of the ensemble of weak interacting…
Social dilemmas are an integral part of social interactions. Cooperative actions, ranging from secreting extra-cellular products in microbial populations to donating blood in humans, are costly to the actor and hence create an incentive to…
This review was written for the Encyclopedia of Complexity and System Science (Springer-Verlag, Berlin, 2008), and is intended as a guide to the growing literature which approaches the phenomena of cell biology from a more theoretical point…