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Advances in bioinformatics and systems biology require improved computational methods for analyzing data, while progress in molecular biology is in turn influencing the development of computer science methods. This book introduces some key problems in bioinformatics, discusses the models used to formally describe these problems, and analyzes the algorithmic approaches used to solve them. After introducing the basics of molecular biology and algorithmics, Part I explains string algorithms and alignments; Part II details the field of physical mapping and DNA sequencing; and Part III examines the application of algorithmics to the analysis of biological data. Exciting application examples include predicting the spatial structure of proteins, and computing haplotypes from genotype data. This book describes topics in detail and presents formal models in a mathematically precise, yet intuitive manner, with many figures and chapter summaries, detailed derivations, and...

This monograph deals with energy based control of interactive robotic interfaces and the port-Hamiltonian framework is exploited both for modeling and controlling interactive robotic interfaces. Using the port-Hamiltonian framework, it is possible to identify the energetic properties that have to be controlled in order to achieve a desired interactive behavior and it is possible to build a port-Hamiltonian controller that properly regulates the robotic interface by shaping its energetic properties. Thanks to its generality, the port-Hamiltonian formalism allows to model and control also complex interactive robotic interfaces in a very natural way. In this book, a port-Hamiltonian approach for regulating the interaction between a robot and a local environment, a virtual environment (i.e. haptic interfaces) and a remote environment (i.e. bilateral telemanipulation systems) is developed.

In the attempt to make good one of the desiderata in Bacon’s Advancement of Learning, a cohort of philosophers, scientists, schoolmasters, clergymen and cranks attempted to devise artificial languages that would immediately represent the order of thought, held both directly to represent the order of things and to be a universal characteristic of the human mind. Language, Mind and Nature fully reconstructs, for the first time, this artificial language movement in seventeenth-century England. In so doing, it reveals a great deal about the beliefs and activities of those who sought to reform learning in the early modern period. Artificial languages straddle occult, religious and proto-scientific approaches to representation and communication, and suggest that much of the so-called ‘new philosophy’ was not very new at all. This study breaks new ground within its field, and will be of interest to anyone concerned with intellectual or linguistic history during this period.

The Self-Organizing Map (SOM), with its variants, is the most popular artificial neural network algorithm in the unsupervised learning category. Many fields of science have adopted the SOM as a standard analytical tool: in statistics,signal processing, control theory, financial analyses, experimental physics, chemistry and medicine. A new area is organization of very large document collections. The SOM is also one of the most realistic models of the biological brain functions.This new edition includes a survey of over 2000 contemporary studies to cover the newest results; the case examples were provided with detailed formulae, illustrations and tables; a new chapter on software tools for SOM was written, other chapters were extended or reorganized.

Harmless artificial life forms are on the loose on the Internet. Computer viruses and even robots are now able to evolve like their biological counterparts. Telecommunications companies are sending small packets of software to go forth and multiply to cope with ever-increasing telephone traffic. Protein-based computers are on the agenda, and a team in Japan is building an organic brain as clever as a kitten. Welcome to the startling world of Artificial Life. Artificial Life scientists are taking inanimate materials such as computer software and robots and making them behave just like living organisms. In the process they are discovering much about what drives evolution and just what it means to say that something is alive. Virtual Organisms tracesthe origins of this field from the days when it was practiced by a few maverick scientists to the present and the current boom in Alife research. Leading technology correspondent Mark Ward presents a fascinating survey of...