The Biology of Computer Life


Book Description

The doctrine of computer life is not congenial to many people. Often they have not thought in any depth about the idea, and it necessarily disturbs their psychological and intellectual frame of reference: it forces a reappraisal of what it is to be alive, what it is to be human, and whether there are profound, yet un expected, implications in the development of modern com puters. There is abundant evidence to suggest that we are wit nessing the emergence of a vast new family of life-forms on earth, organisms that are not based on the familiar metabolic chemistries yet whose manifest 'life credentials' are accumulating year by year. It is a mistake to regard biology as a closed science, with arbitrarily limited categories; and we should agree with Jacob (1974) who observed that 'Contrary to what is imagined, biology is not a unified science'. Biology is essentially concerned with living things, and we should be reluctant to assume that at anyone time our concept and understanding of life are complete and incapable of further refinement. And it seems clear that much of the continuing refinement of biological categories will be stimulated by advances in systems theory, and in particular by those advances that relate to the rapidly expanding world of computing and robotics. We should also remember what Pant in (1968) said in a different context: 'the biological sciences are unrestricted . . . and their investigator must be prepared to follow their problems into any other science whatsoever.




Digital Biology


Book Description

Imagine a future world where computers can create universes -- digital environments made from binary ones and zeros. Imagine that within these universes there exist biological forms that reproduce, grow, and think. Imagine plantlike forms, ant colonies, immune systems, and brains, all adapting, evolving, and getting better at solving problems. Imagine if our computers became greenhouses for a new kind of nature. Just think what digital biology could do for us. Perhaps it could evolve new designs for us, think up ways to detect fraud using digital neurons, or solve scheduling problems with ants. Perhaps it could detect hackers with immune systems or create music from the patterns of growth of digital seashells. Perhaps it would allow our computers to become creative and inventive. Now stop imagining. digital biology is an intriguing glimpse into the future of technology by one of the most creative thinkers working in computer science today. As Peter J. Bentley explains, the next giant step in computing technology is already under way as computer scientists attempt to create digital universes that replicate the natural world. Within these digital universes, we will evolve solutions to problems, construct digital brains that can learn and think, and use immune systems to trap and destroy computer viruses. The biological world is the model for the next generation of computer software. By adapting the principles of biology, computer scientists will make it possible for computers to function as the natural world does. In practical terms, this will mean that we will soon have "smart" devices, such as houses that will keep the temperature as we like it and automobiles that will start only for drivers they recognize (through voice recognition or other systems) and that will navigate highways safely and with maximum fuel efficiency. Computers will soon be powerful enough and small enough that they can become part of clothing. "Digital agents" will be able to help us find a bank or restaurant in a city that we have never visited before, even as we walk through the airport. Miniature robots may even be incorporated into our bodies to monitor our health. Digital Biology is also an exploration of biology itself from a new perspective. We must understand how nature works in its most intimate detail before we can use these same biological processes inside our computers. Already scientists engaged in this work have gained new insights into the elegant simplicity of the natural universe. This is a visionary book, written in accessible, nontechnical language, that explains how cutting-edge computer science will shape our world in the coming decades.




The Biology of Computer Life


Book Description

The doctrine of computer life is not congenial to many people. Often they have not thought in any depth about the idea, and it necessarily disturbs their psychological and intellectual frame of reference: it forces a reappraisal of what it is to be alive, what it is to be human, and whether there are profound, yet un expected, implications in the development of modern com puters. There is abundant evidence to suggest that we are wit nessing the emergence of a vast new family of life-forms on earth, organisms that are not based on the familiar metabolic chemistries yet whose manifest 'life credentials' are accumulating year by year. It is a mistake to regard biology as a closed science, with arbitrarily limited categories; and we should agree with Jacob (1974) who observed that 'Contrary to what is imagined, biology is not a unified science'. Biology is essentially concerned with living things, and we should be reluctant to assume that at anyone time our concept and understanding of life are complete and incapable of further refinement. And it seems clear that much of the continuing refinement of biological categories will be stimulated by advances in systems theory, and in particular by those advances that relate to the rapidly expanding world of computing and robotics. We should also remember what Pant in (1968) said in a different context: 'the biological sciences are unrestricted . . . and their investigator must be prepared to follow their problems into any other science whatsoever.




Biocomputing


Book Description

In the quest to understand and model the healthy or sick human body, re searchers and medical doctors are utilizing more and more quantitative tools and techniques. This trend is pushing the envelope of a new field we call Biomedical Computing, as an exciting frontier among signal processing, pattern recognition, optimization, nonlinear dynamics, computer science and biology, chemistry and medicine. A conference on Biocomputing was held during February 25-27, 2001 at the University of Florida. The conference was sponsored by the Center for Applied Optimization, the Computational Neuroengineering Center, the Biomedical En gineering Program (through a Whitaker Foundation grant), the Brain Institute, the School of Engineering, and the University of Florida Research & Graduate Programs. The conference provided a forum for researchers to discuss and present new directions in Biocomputing. The well-attended three days event was highlighted by the presence of top researchers in the field who presented their work in Biocomputing. This volume contains a selective collection of ref ereed papers based on talks presented at this conference. You will find seminal contributions in genomics, global optimization, computational neuroscience, FMRI, brain dynamics, epileptic seizure prediction and cancer diagnostics. We would like to take the opportunity to thank the sponsors, the authors of the papers, the anonymous referees, and Kluwer Academic Publishers for making the conference successful and the publication of this volume possible. Panos M. Pardalos and Jose C.




A Computer Scientist's Guide to Cell Biology


Book Description

This book is designed specifically as a guide for Computer Scientists needing an introduction to Cell Biology. The text explores three different facets of biology: biological systems, experimental methods, and language and nomenclature. The author discusses what biologists are trying to determine from their experiments, how various experimental procedures are used and how they relate to accepted concepts in computer science, and the vocabulary necessary to read and understand current literature in biology. The book is an invaluable reference tool and an excellent starting point for a more comprehensive examination of cell biology.




Artificial Life


Book Description

This book looks at artificial life science - A-Life, an important new area of scientific research involving the disciplines of microbiology, evolutionary theory, physics, chemistry and computer science. In the 1940s a mathematician named John von Neumann, a man with a claim to being the father of the modern computer, invented a hypothetical mathematical entity called a cellular automaton. His aim was to construct a machine that could reproduce itself. In the years since, with the development of hugely more sophisticated and complex computers, von Neumann's insights have gradually led to a point where scientists have created, within the wiring of these machines, something that so closely simulates life that it may, arguably, be called life. This machine reproduces itself, mutates, evolves through generations and dies.




The Age of Living Machines: How Biology Will Build the Next Technology Revolution


Book Description

"Entertaining and prescient…Hockfield demonstrates how nature’s molecular riches may be leveraged to provide potential solutions to some of humanity’s existential challenges." —Adrian Woolfson, Science A century ago, discoveries in physics came together with engineering to produce an array of astonishing new technologies that radically reshaped the world: radios, televisions, aircraft, computers, and a host of still-evolving digital tools. Today, a new technological convergence—of biology and engineering—promises to create the tools necessary to tackle the threats we now face, including climate change, drought, famine, and disease World-renowned neuroscientist and academic leader Susan Hockfield describes the most exciting new developments and the scientists and engineers who helped to create them. Virus-built batteries. Cancer-detecting nanoparticles. Computer-engineered crops. Together, they highlight the promise of the technology revolution of the twenty-first century to overcome some of the greatest humanitarian, medical, and environmental challenges of our time.




Wetware


Book Description

“A beautifully written journey into the mechanics of the world of the cell, and even beyond, exploring the analogy with computers in a surprising way” (Denis Noble, author of Dance to the Tune of Life). How does a single-cell creature, such as an amoeba, lead such a sophisticated life? How does it hunt living prey, respond to lights, sounds, and smells, and display complex sequences of movements without the benefit of a nervous system? This book offers a startling and original answer. In clear, jargon-free language, Dennis Bray taps the findings from the discipline of systems biology to show that the internal chemistry of living cells is a form of computation. Cells are built out of molecular circuits that perform logical operations, as electronic devices do, but with unique properties. Bray argues that the computational juice of cells provides the basis for all distinctive properties of living systems: it allows organisms to embody in their internal structure an image of the world, and this accounts for their adaptability, responsiveness, and intelligence. In Wetware, Bray offers imaginative, wide-ranging, and perceptive critiques of robotics and complexity theory, as well as many entertaining and telling anecdotes. For the general reader, the practicing scientist, and all others with an interest in the nature of life, this book is an exciting portal to some of biology’s latest discoveries and ideas. “Drawing on the similarities between Pac-Man and an amoeba and efforts to model the human brain, this absorbing read shows that biologists and engineers have a lot to learn from working together.” —Discover magazine “Wetware will get the reader thinking.” —Science magazine




Catalyzing Inquiry at the Interface of Computing and Biology


Book Description

Advances in computer science and technology and in biology over the last several years have opened up the possibility for computing to help answer fundamental questions in biology and for biology to help with new approaches to computing. Making the most of the research opportunities at the interface of computing and biology requires the active participation of people from both fields. While past attempts have been made in this direction, circumstances today appear to be much more favorable for progress. To help take advantage of these opportunities, this study was requested of the NRC by the National Science Foundation, the Department of Defense, the National Institutes of Health, and the Department of Energy. The report provides the basis for establishing cross-disciplinary collaboration between biology and computing including an analysis of potential impediments and strategies for overcoming them. The report also presents a wealth of examples that should encourage students in the biological sciences to look for ways to enable them to be more effective users of computing in their studies.




Imitation of Life


Book Description

How scientists are using nature as model and metaphor to reinvent computing: a survey of an emerging field. As computers and the tasks they perform become increasingly complex, researchers are looking to nature—as model and as metaphor—for inspiration. The organization and behavior of biological organisms present scientists with an invitation to reinvent computing for the complex tasks of the future. In Imitation of Life, Nancy Forbes surveys the emerging field of biologically inspired computing, looking at some of the most impressive and influential examples of this fertile synergy. Forbes points out that the influence of biology on computing goes back to the early days of computer science—John von Neumann, the architect of the first digital computer, used the human brain as the model for his design. Inspired by von Neumann and other early visionaries, as well as by her work on the "Ultrascale Computing" project at the Defense Advanced Research Projects Agency (DARPA), Forbes describes the exciting potential of these revolutionary new technologies. She identifies three strains of biologically inspired computing: the use of biology as a metaphor or inspiration for the development of algorithms; the construction of information processing systems that use biological materials or are modeled on biological processes, or both; and the effort to understand how biological organisms "compute," or process information. Forbes then shows us how current researchers are using these approaches. In successive chapters, she looks at artificial neural networks; evolutionary and genetic algorithms, which search for the "fittest" among a generation of solutions; cellular automata; artificial life—not just a simulation, but "alive" in the internal ecosystem of the computer; DNA computation, which uses the encoding capability of DNA to devise algorithms; self-assembly and its potential use in nanotechnology; amorphous computing, modeled on the kind of cooperation seen in a colony of cells or a swarm of bees; computer immune systems; bio-hardware and how bioelectronics compares to silicon; and the "computational" properties of cells.




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