Theoretical Biology and Complexity: Three Essays on the Natural Philosophy of Complex Systems is made up of three short essays-each separately conceived and written, each with distinct thrusts and emphases, but nevertheless closely related in substance and spirit. All three spring from a common concern: to grasp and comprehend the material basis of living systems. The first essay is about the interaction between particles and the consequent observable manifestations. It casts the analysis of the measurement process into an elegant dualism relating modes of description, and explores the conseq ...
Theoretical Biology and Complexity: Three Essays on the Natural Philosophy of Complex Systems is made up of three short essays—each separately conceived and written, each with distinct thrusts and emphases, but nevertheless closely related in substance and spirit. All three spring from a common concern: to grasp and comprehend the material basis of living systems. The first essay is about the interaction between particles and the consequent observable manifestations. It casts the analysis of the measurement process into an elegant dualism relating modes of description, and explores the consequences of this dualism for what may be called classical physics. The second essay explores the deeper consequences of representing the properties of natural systems through states built up out of observable quantities, and the dynamics that such systems impose on each other through interactions. The final essay argues that traditional modes of system representation, involving fixed sets of states together with imposed dynamical laws, strictly pertains only to an extremely limited class of systems (called simple systems or mechanisms). Systems not in this class are called "complex, and these can only be in some sense approximated, locally and temporally, by simple ones. Such a radical alteration of viewpoint leads to a large number of concrete, practical consequences, some of which are described in the essay.
This beautifully crafted book collects images, which were created during the process of research in all fields of theoretical biology. Data analysis, numerical treatment of a model, or simulation results yield stunning images, which represent pieces of art just by themselves. The approach of the book is to present for each piece of visualization a lucid synopsis of the scientific background as well as an outline of the artistic vision.
Signs of Life applies the mathematics of order and disorder, of entropy, chance, and randomness, of chaos and nonlinear dynamics to the various mysteries of the living world at all levels. This book is an entirely new approach to understanding living systems and will help set the agenda for biology in the coming century.
The aim of this book is to show how supramolecular complexity of cell organization can dramatically alter the functions of individual macromolecules within a cell. The emergence of new functions which appear as a consequence of supramolecular complexity, is explained in terms of physical chemistry. The book is interdisciplinary, at the border between cell biochemistry, physics and physical chemistry. This interdisciplinarity does not result in the use of physical techniques but from the use of physical concepts to study biological problems. In the domain of complexity studies, most works are purely theoretical or based on computer simulation. The present book is partly theoretical, partly experimental and theory is always based on experimental results. Moreover, the book encompasses in a unified manner the dynamic aspects of many different biological fields ranging from dynamics to pattern emergence in a young embryo. The volume puts emphasis on dynamic physical studies of biological events. It also develops, in a unified perspective, this new interdisciplinary approach of various important problems of cell biology and chemistry, ranging from enzyme dynamics to pattern formation during embryo development, thus paving the way to what may become a central issue of future biology.
This book was originally written in 1969 by Berkeley mathematician John Rhodes. It is the founding work in what is now called algebraic engineering, an emerging field created by using the unifying scheme of finite state machine models and their complexity to tie together many fields: finite group theory, semigroup theory, automata and sequential machine theory, finite phase space physics, metabolic and evolutionary biology, epistemology, mathematical theory of psychoanalysis, philosophy, and game theory. The author thus introduced a completely original algebraic approach to complexity and the understanding of finite systems. The unpublished manuscript, often referred to as "The Wild Book," became an underground classic, continually requested in manuscript form, and read by many leading researchers in mathematics, complex systems, artificial intelligence, and systems biology. Yet it has never been available in print until now. This first published edition has been edited and updated by Chrystopher Nehaniv for the 21st century. Its novel and rigorous development of the mathematical theory of complexity via algebraic automata theory reveals deep and unexpected connections between algebra (semigroups) and areas of science and engineering. Co-founded by John Rhodes and Kenneth Krohn in 1962, algebraic automata theory has grown into a vibrant area of research, including the complexity of automata, and semigroups and machines from an algebraic viewpoint, and which also touches on infinite groups, and other areas of algebra. This book sets the stage for the application of algebraic automata theory to areas outside mathematics. The material and references have been brought up to date bythe editor as much as possible, yet the book retains its distinct character and the bold yet rigorous style of the author. Included are treatments of topics such as models of time as algebra via semigroup theory; evolution-complexity relations applicable to both ontogeny and evolution; an approach to classification of biological reactions and pathways; the relationships among coordinate systems, symmetry, and conservation principles in physics; discussion of "punctuated equilibrium" (prior to Stephen Jay Gould); games; and applications to psychology, psychoanalysis, epistemology, and the purpose of life. The approach and contents will be of interest to a variety of researchers and students in algebra as well as to the diverse, growing areas of applications of algebra in science and engineering. Moreover, many parts of the book will be intelligible to non-mathematicians, including students and experts from diverse backgrounds.
This book examines life not from the reductionist point of view, but rather asks the questions: what are the universal properties of living systems, and how can one construct from there a phenomenological theory of life that leads naturally to complex processes such as reproductive cellular systems, evolution and differentiation? The presentation is relatively non-technical to appeal to a broad spectrum of students and researchers.
The book offers new concepts and ideas that broaden reader’s perception of modern science. Internationally established experts present the inspiring new science of complexity, which discovers new general laws covering wide range of science areas. The book offers a broader view on complexity based on the expertise of the related areas of chemistry, biochemistry, biology, ecology, and physics. Contains methodologies for assessing the complexity of systems that can be directly applied to proteomics and genomics, and network analysis in biology, medicine, and ecology.
This book explains the relationship between intelligence and environmental complexity, and in so doing links philosophy of mind to more general issues about the relations between organisms and environments, and to the general pattern of 'externalist' explanations. The author provides a biological approach to the investigation of mind and cognition in nature. In particular he explores the idea that the function of cognition is to enable agents to deal with environmental complexity. The history of the idea in the work of Dewey and Spencer is considered, as is the impact of recent evolutionary theory on our understanding of the place of mind in nature.
