A. H. Louie's More Than Life Itself is an exploratory journey in relational biology, a study of life in terms of the organization of entailment relations in living systems. This book represents a synergy of the mathematical theories of categories, lattices, and modelling, and the result is a synthetic biology that provides a characterization of life. Biology extends physics. Life is not a specialization of mechanism, but an expansive generalization of it. Organisms and machines share some common features, but organisms (...) are not machines. Life is defined by a relational closure that places it beyond the reach of physicochemical and mechanistic dogma, outside the reductionistic universe, and into the realm of impredicativity. Function dictates structure. Complexity brings forth living beings. (shrink)

The phenomenological calculus is a relational paradigm for complex systems, closely related in substance and spirit to Robert Rosen’s own approach. Its mathematical language is multilinear algebra. The epistemological exploration continues in this paper, with the expansion of the phenomenological calculus into the realm of anisotropy.

Following a previous article published in Biological Theory, in this study we present a mathematical theory for a science of qualities as directly perceived by living organisms, and based on morphological patterns. We address a range of qualitative phenomena as observables of a psychological system seen as an impredicative system. The starting point of our study is the notion that perceptual phenomena are projections of underlying invariants, objects that remain unchanged when transformations of a certain class under consideration are applied. (...) The study develops with the observables, the entailed total order and metric, whence the algebra and the geometry of such a science, presenting a formal phenomenological model for phenomena that are not rigidly Euclidean. We show how non-Euclidean perception can have many useful Euclidean formalizations, as well as locally-homeomorphic-to-Euclidean-space models. The mathematical models we provide are tested on the basis of results from experimental psychology, in particular from the field of color, time, and space perception. (shrink)

On the basis of previous studies in relational biology and the phenomenological calculus, in my contribution I outline the mathematical foundations of biological perception generally, and visual perception specifically. In this approach, the premise is that objects in nature are not directly accessible, and that real manifestations are projections of these invariant objects. The morphology of observables is mathematically entailed by the duality of projections and projectors in a bilinear algebra that is the phenomenological calculus. The relationships between what is (...) not directly accessible (which can be defined as noumena) and phenomena may be explicated in terms of metabolism and repair, whence a geometric theory of the perceived, the visible in particular, may be formulated in the category-theoretic language of relational biology. (shrink)

I comment on the preceding essays in this current thematic issue of Axiomathes , essays that discuss my 2009 book More Than Life Itself: A Synthetic Continuation in Relation Biology.

I explicate the crucial role played by efficient cause in Robert Rosen’s characterization of life, by elaborating on the topic of Aristotelian causality, and exploring the many alternate descriptions of causal and inferential entailments. In particular, I discuss the concepts of functional entailment and immanent causation, and examine how they fit into Robert Rosen’s relational-biology universe of living, anticipatory, and complex systems.

I formulate in relational terms the ubiquitous biological interaction of symbiosis. I explicate the topology of the different modes of relational interactions of (M, R)-networks, the entailment diagrams that model the host and the symbiont. These modes all have biological realizations as various categories of symbiotic relationships, ranging from mutualism to parasitism to infection.

Traditional modes of system representation as dynamical systems, involving fixed sets of states together with imposed dynamical laws, pertain only to a meagre subclass of natural systems. This reductionistic paradigm leaves no room for final causes; constrained thus are the simple systems. Members of their complementary collection, natural systems having mathematical models that are not dynamical systems, are the complex systems. Complex systems, containing hierarchical cycles in their entailment networks, can only be approximated and simulated, locally and temporarily, by simple (...) ones. Anticipatory systems are, in this specific sense, complex, hence this introductory chapter on Complex Systems in the Handbook of Anticipation. (shrink)

I explicate how various relational interactions between (M,R)-systems may have realizations in pathophysiology, and how the possible reversals of the effects of these interactions then become therapeutic models. Functional entailment receives a rigorous category-theoretic treatment, and plays a crucial role in this continuing saga of relational biology.

This rare publication continues an exploratory journey in relational biology, a study of biology in terms of the organization of networked connections in living systems. It builds on the author's two earlier monographs which looked at the epistemology of life and the ontogeny of life. Here the emphasis is on the intangibility of life, that the real nature of living systems is conveyed not by their tangible material basis but by their intangible inherent processes. Relational biology is the approach that (...) hails 'function dictates structure'; it is mathematics decoded into biological realizations. Therefore, the work begins with a concise introduction to category theory, equiping the reader with the mathematical metalanguage of relation biology. The book is organized around three parts: Part I is a comprehensive study of the most important functor in relational biology, the power set functor. The author lays the set-theoretic foundations of the functorial connections in relational biology, exploring relations, mappings, and set-valued mappings. In Part II, Natural Law receives a new mathematical formulation founded on two axioms: 'Everything is a set.' and 'Every process is a set-valued mapping.' The reader sees how Metabolism-Repair networks, equipped with set-valued processors, expand their role from models of biological entities to generic models of all natural systems. Part III expounds the various shades of invertibility in general, and the inversion of encoding to decoding in particular. A plethora of mathematical and biological examples illustrate the category-theoretic concepts of equivalence and adjunction. This book's algebraic approach to biological models will appeal to researchers and graduate students in mathematics, biology, and the philosophy of science. (shrink)

Algebraic/topological descriptions of living processes are indispensable to the understanding of both biological and cognitive functions. This paper presents a fundamental algebraic description of living/cognitive processes and exposes its inherent ambiguity. Since ambiguity is forbidden to computation, no computational description can lend insight to inherently ambiguous processes. The impredicativity of these models is not a flaw, but is, rather, their strength. It enables us to reason with ambiguous mathematical representations of ambiguous natural processes. The noncomputability of these structures means computerized (...) simulacra of them are uninformative of their key properties. This leads to the question of how we should reason about them. That question is answered in this paper by presenting an example of such reasoning, the demonstration of a topological strategy for understanding how the fundamental structure can form itself from within itself. (shrink)