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The field of bioinformatics and computational biology arose due to the need to apply techniques from computer science, statistics, informatics, and applied mathematics to solve biological problems. Scientists have been trying to study biology at a molecular level using techniques derived from biochemistry, biophysics, and genetics. Progress has greatly accelerated with the discovery of fast and inexpensive automated DNA sequencing techniques. As the genomes of more and more organisms are sequenced and assembled, scientists are discovering many useful facts by tracing the evolution of organisms by measuring changes in their DNA, rather than through physical characteristics alone. This has led to rapid growth in the related fields of phylogenetics, the study of evolutionary relatedness among various groups of organisms, and comparative genomics, the study of the correspondence between genes and other genomic features in different organisms. Comparing the genomes of organisms has allowed researchers to better understand the features and functions of DNA in individual organisms, as well as provide insights into how organisms evolve over time. The first four chapters of Advances in Computers focus on algorithms for comparing the genomes of different organisms. Possible concrete applications include identifying the basis for genetic diseases and tracking the development and spread of different forms of Avian flu. As researchers begin to better understand the function of DNA, attention has begun shifting towards the actual proteins produced by DNA. The final two chapters explore proteomic techniques for analyzing proteins directly to identify their presence and understand their physical structure. - Written by active PhD researchers in computational biology and bioinformatics
Though biogeography may be simply defined--the study of the geographic distributions of organisms--the subject itself is extraordinarily complex, involving a range of scientific disciplines and a bewildering diversity of approaches. For convenience, biogeographers have recognized two research traditions: ecological biogeography and historical biogeography. This book makes sense of the profound revolution that historical biogeography has undergone in the last two decades, and of the resulting confusion over its foundations, basic concepts, methods, and relationships to other disciplines of comparative biology. Using case studies, the authors explain and illustrate the fundamentals and the most frequently used methods of this discipline. They show the reader how to tell when a historical biogeographic approach is called for, how to decide what kind of data to collect, how to choose the best method for the problem at hand, how to perform the necessary calculations, how to choose and apply a computer program, and how to interpret results.
To unravel the complex shared history of the Earth and its life forms, biogeographers analyze patterns of biodiversity, species distribution, and geological history. So far, the field of biogeography has been fragmented into divergent systematic and evolutionary approaches, with no overarching or unifying research theme or method. In this text, Lynne Parenti and Malte Ebach address this discord and outline comparative tools to unify biogeography. Rooted in phylogenetic systematics, this comparative biogeographic approach offers a comprehensive empirical framework for discovering and deciphering the patterns and processes of the distribution of life on Earth. The authors cover biogeography from its fundamental ideas to the most effective ways to implement them. Real-life examples illustrate concepts and problems, including the first comparative biogeographical analysis of the Indo-West Pacific, an introduction to biogeographical concepts rooted in the earth sciences, and the integration of phylogeny, evolution and earth history.
Through eight successful editions, and over nearly 40 years, Biogeography: An Ecological and Evolutionary Approach has provided a thorough and comprehensive exploration of the varied scientific disciplines and research that are essential to understanding the subject. The text has been praised for its solid background in historical biogeography and basic biology, that is enhanced and illuminated by discussions of current research. This new edition incorporates the exciting changes of the recent years, and presents a thoughtful exploration of the research and controversies that have transformed our understanding of the biogeography of the world. It also clearly identifies the three quite different arenas of biogeographical research: continental biogeography, island biogeography and marine biogeography. It is the only current textbook with full coverage of marine biogeography. It reveals how the patterns of life that we see today have been created by the two great Engines of the Planet - the Geological Engine, plate tectonics, which alters the conditions of life on the planet, and the Biological Engine, evolution, which responds to these changes by creating new forms and patterns of life.
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.