Information processing and information flow occur in the course of an organism's development and throughout its lifespan. Organisms do not exist in isolation, but interact with each other constantly within a complex ecosystem. The relationships between organisms, such as those between prey or predator, host and parasite, and between mating partners, are complex and multidimensional. In all cases, there is constant communication and information flow at many levels.This book focuses on information processing by life forms and the use of information technology in understanding them. Readers are first given a comprehensive overview of biocomputing before navigating the complex terrain of natural processing of biological information using physiological and analogous computing models. The remainder of the book deals with “artificial” processing of biological information as a human endeavor in order to derive new knowledge and gain insight into life forms and their functioning. Specific innovative applications and tools for biological discovery are provided as the link and complement to biocomputing.Since “artificial” processing of biological information is complementary to natural processing, a better understanding of the former helps us improve the latter. Consequently, readers are exposed to both domains and, when dealing with biological problems of their interest, will be better equipped to grasp relevant ideas.

Living beings require constant information processing for survival. In cells, information is being processed and propagated at various levels, from the gene regulatory network to chemical pathways, to the interaction with the environment. How this is achieved and how information is coded is still poorly understood. For example, what a cell interprets as information in the temporal level of an mRNA and what is interpreted as noise remains an open question. Recently, information theoretical methods and other tools, developed in the context of engineering and natural sciences, have been applied to study diverse biological processes. This book covers the latest findings on how information is processed in various biological processes, ranging from information processing and propagation in gene regulatory networks to information processing in natural language. An overview is presented of the state-of-the-art in information processing in biological systems and the opinion of current leaders in this research field on future research directions.

Information processing and information flow occur in the course of an organism's development and throughout its lifespan. Organisms do not exist in isolation, but interact with each other constantly within a complex ecosystem. The relationships between organisms, such as those between prey or predator, host and parasite, and between mating partners, are complex and multidimensional. In all cases, there is constant communication and information flow at many levels.This book focuses on information processing by life forms and the use of information technology in understanding them. Readers are first given a comprehensive overview of biocomputing before navigating the complex terrain of natural processing of biological information using physiological and analogous computing models. The remainder of the book deals with ?artificial? processing of biological information as a human endeavor in order to derive new knowledge and gain insight into life forms and their functioning. Specific innovative applications and tools for biological discovery are provided as the link and complement to biocomputing.Since ?artificial? processing of biological information is complementary to natural processing, a better understanding of the former helps us improve the latter. Consequently, readers are exposed to both domains and, when dealing with biological problems of their interest, will be better equipped to grasp relevant ideas.

Biological Processes in Living Systems is the fourth and final volume of the Toward a Theoretical Biology series. It contains essays that deal in detail with particular biological processes: morphogenesis of pattern, the development of neuronal networks, evolutionary processes, and others. The main thrust of this volume brings relevance to the general underlying nature of living systems. Faced with trying to understand how the complexity of molecular microstates leads to the relative simplicity of phenome structures, Waddington-on behalf of his colleagues-stresses on the structure of language as a paradigm for a theory of general biology. This is language in an imperative mood: a set of symbols, organized by some form of generative grammar, making possible the conveyance of commands for action to produce effects on the surroundings of the emitting and the receiving entities. "Biology," he writes, "is concerned with algorithm and program." Among the contributions in this volume are: "The Riemann-Hugoniot Catastrophe and van der Waals Equation," David H. Fowler; "Differential Equations for the Heartbeat and Nerve Impulse," E. Christopher Zeeman; "Structuralism and Biology," Rene Thom; "The Concept of Positional Information and Pattern Formation," Lewis Wolpert; "Pattern Formation in Fibroblast Cultures," Tom Elsdale; "Form and Information," C. H. Waddington; "Organizational Principles for Theoretical Neurophysiology," Michael A. Arbib; "Stochastic Models of Neuroelectric Activity," Jack D. Cowan. Biological Processes in Living Systems is a pioneering volume by recognized leaders in an ever-growing field.

This volume contains papers based on the workshop OC Energy and Information Transfer in Biological Systems: How Physics Could Enrich Biological UnderstandingOCO, held in Italy in 2002. The meeting was a forum aimed at evaluating the potential and outlooks of a modern physics approach to understanding and describing biological processes, especially regarding the transition from the microscopic chemical scenario to the macroscopic functional configurations of living matter. In this frame some leading researchers presented and discussed several basic topics, such as the photon interaction with biological systems also from the viewpoint of photon information processes and of possible applications; the influence of electromagnetic fields on the self-organization of biosystems including the nonlinear mechanism for energy transfer and storage; and the influence of the structure of water on the properties of biological matter."

The central question in the biological sciences for the past 100 years has concerned an understanding of how living systems differ from other general physical phenomena and what makes these systems unique. With new developments in the fields of nonequilibrium thermodynamics, systems theory, chaos, and information theory over the past few decades, there has been growing interest in finally answering the question first posed by Erwin Schrödinger in the 1940s concerning the true scientific nature of living systems. Similarly, there is also increasing interest within the biologic community for a more holistic and non-reductionist methodology. The approach followed in this book builds on a foundation of information theory and semiotics while integrating basic thermodynamic considerations and systems theory to form a singular unifying concept that is proposed to be the essential process of living systems. However, the premise presented is much more than simply the exposition of a new hypothesis. This book describes the logical progression of thought incorporating a diverse array of established scientific ideas that were used in the conceptualization of a dynamic mathematical framework that can be employed as a novel analytic means for the study of living systems and their fundamental processes.

The first volume to integrate life's biological, cognitive, social, and ecological dimensions into a single, coherent framework.

Theory of Neural Information Processing Systems provides an explicit, coherent, and up-to-date account of the modern theory of neural information processing systems. It has been carefully developed for graduate students from any quantitative discipline, including mathematics, computer science, physics, engineering or biology, and has been thoroughly class-tested by the authors over a period of some 8 years. Exercises are presented throughout the text and notes on historical background and further reading guide the student into the literature. All mathematical details are included and appendices provide further background material, including probability theory, linear algebra and stochastic processes, making this textbook accessible to a wide audience.

An interdisciplinary team of scientists is presenting a new paradigm: all existing structures on earth are the consequence of information processing. Since these structures have been evolved over the last five billion years, information processing and its systems have an evolution.This is under consideration in the book. Starting with a basic paper which summarizes the essential hypotheses about the evolution of informaion processing systems, sixteen international scientists have tried to verify or falsify these hypothesises. This has been done at the physical, the chemical, the genetic, the neural, the social, the societal and the socio-technical level. Thus, the reader gets an insight into the recent status of research on the evolution of information processing systems. The papers are the result of an interdisciplinary project in which scientists of the classical disciplines have been invited to collaborate. Their inputs have been intensively discussed in a workshop. The book is the output of the workshop. The first goal of the bookis to give the reader an insight into basic principles about the evolution of information processing systems. This, however, leads directly to a very old and essential question: who is controlling the world, "matter" or an "immaterial intelligence"? Several authors of the papers are arguing that there is a basic concept of information processing in nature. This is the crucial process, which, however, needs a material basis. The reader has a chance to understand this paradigm as an approach which is valid for all levels of inorganic, organic and societal structures. This provocative concept is open to debate.