Book Description:
Familiar sciences of biology, physics, chemistry, cybernetics, and computational methods for dealing with vast new data sets of information at molecular and sub-molecular levels are morphing into new sciences. Some exist beneath our line of sight where laws of nature hover between Newtonian and quantum mechanics. New fields of cyber-, bio-, nanotechnology and systems biology raise arcane new concepts. The completed human genome has led to an explosion of interest in genetics and molecular biology. The view of the genome as a network of interacting computational components is well established and here writers explore it in new ways. These systemic approaches are timely in light of the availability of an increasing number of genomic sequences, and the generation of large volumes of biological data by high-throughput methods. Suitable for two-semesters of study, the works surveys genomics principles in the 13 chapters of Vol I, and networks and models in the 14 chapters of Vol II. Both, as a two-book set, will serve as core foundation titles for Dennis Shasha's Series in Systems Biology, establishing the principles and challenges for this emerging field of study. In each chapter world-renowned experts trail-blazing in their respective fields will review corresponding topics as well as current and planned research. Chapters will treat the integrated study and analysis of biological systems by use of data and information about the system components in their entirety, as opposed to the study of individual components in isolation. Systems Biology courses are popping up all over the place and biology, computer science, and bioinformatics programs are the primary potential takers. The editors plan books for a very wide audience, at the same time providing a comprehensive repository of up-to-date overviews and predictions for a number of inter-related sub-fields within this hierarchy. Intended readers include graduate students plus academic and professional researchers of genomics, bioinformatics, molecular biology, biochemistry, bioengineering, and computer systemic approaches to those fields. By comparison, Shasha's first Systems Biology Series title, Amos's Cellular Biology, is a book for technologists using biology as a vehicle to do something else, whereas this is a book about systems and related technologies in service to biologists. The volume editors plan to review or have reviewed, and to edit the invited chapters for content and consistent conceptual level, each chapter contributing uniquely to the key aspects of the Systems Biology hierarchy. A few chapter contents may date after two years, but the majority will endure for longer-term reference use because they treat methodologies and provide sample applications.
Systems Biology: Volume II: Networks, Models, and Applications
Book Description:
The advent of genome sequencing and associated technologies has transformed biologists' ability to measure important classes of molecules and their interactions. This expanded cellular view has opened the field to thousands of interactions that previously were outside the researchers' reach. The processing and interpretation of these new vast quantities of interconnected data call for sophisticated mathematical models and computational methods. Systems biology meets this need by combining genomic knowledge with theoretical, experimental and computational approaches from a number of traditional scientific disciplines to create a mechanistic explanation of cellular systems and processes. Systems Biology I: Genomics and Systems Biology II: Networks, Models, and Applications offer a much-needed study of genomic principles and their associated networks and models. Written for a wide audience, each volume presents a timely compendium of essential information that is necessary for a comprehensive study of the subject. The chapters in the two volumes reflect the hierarchical nature of systems biology. Chapter authors-world-recognized experts in their fields-provide authoritative discussions on a wide range of topics along this hierarchy. Volume I explores issues pertaining to genomics that range from prebiotic chemistry to noncoding RNAs. Volume II covers an equally wide spectrum, from mass spectrometry to embryonic stem cells. The two volumes are meant to provide a reliable reference for students and researchers alike.
Systems Biology: Properties of Reconstructed Networks
Book Description
Genome sequences are now available that enable us to determine the biological components that make up a cell or an organism. The new discipline of systems biology examines how these components interact and form networks, and how the networks generate whole cell functions corresponding to observable phenotypes. This textbook describes how to model networks, determine their properties, and relate these to phenotypic functions. Some knowledge of linear algebra and biochemistry is required, since the book reflects the irreversible trend of increasing mathematical content in biology education.
Computational Systems Biology
Book Description:
Systems Biology is concerned with the quantitative study of complex biosystems at the molecular, cellular, tissue, and systems scales. Its focus is on the function of the system as a whole, rather than on individual parts.
This exciting new arena applies mathematical modeling and engineering methods to the study of biological systems. This book is the first of its kind to focus on the newly emerging field of systems biology with an emphasis on computational approaches. The work covers new concepts, methods for information storage, mining and knowledge extraction, reverse engineering of gene and metabolic networks, as well as modelling and simulation of multi-cellular systems. Central themes include strategies for predicting biological properties and methods for elucidating structure-function relationships.
Book Description:
Systems biology represents the integration and application of various technologies that share a common goal of measuring globally the properties of a specific biological sample. These combined data describe and monitor the complex networks that exist within each cell, tissue and organism, and can be used to generate predictive models of the behavior of the system. This volume aims to provide a timely view of the "state of the art" in systems biology. The editors take the opportunity to define systems biology as they and the contributing authors see it, and this will lay the groundwork for future studies. The volume is well-suited to both students and researchers interested in the methods of systems biology. Although the focus is on plant systems biology, the proposed material could be suitably applied to any organism.
Introduction to Computational Biology: An Evolutionary Approach
Book Description:
Analysis of molecular sequence data is the main subject of this introduction to computational biology. There are two closely connected aspects to biological sequences: (i) their relative position in the space of all other sequences, and (ii) their movement through this sequence space in evolutionary time. Accordingly, the first part of the book deals with classical methods of sequence analysis: pairwise alignment, exact string matching, multiple alignment, and hidden Markov models. In the second part evolutionary time takes center stage and phylogenetic reconstruction, the analysis of sequence variation, and the dynamics of genes in populations are explained in detail. In addition, the book contains a computer program with a graphical user interface that allows the reader to experiment with a number of key concepts developed by the authors. This textbook is intended for students enrolled in courses in computational biology or bioinformatics as well as for molecular biologists, mathematicians, and computer scientists.
Book Description:
In this anthology, leading researchers present critical reviews of methods and high-impact applications in computational biology that lead to results that also non-bioinformaticians must know to design efficient experimental research plans. Discovering Biomolecular Mechanisms with Computational Biology also summarizes non-trivial theoretical predictions for regulatory and metabolic networks that have received experimental confirmation. Discovering Biomolecular Mechanisms with Computational Biology is essential reading for life science researchers and higher-level students that work on biomolecular mechanisms and wish to understand the impact of computational biology for their success.
Book Description
The quantitative analysis of biological sequence data is based on methods from statistics coupled with efficient algorithms from computer science. Algebra provides a framework for unifying many of the seemingly disparate techniques used by computational biologists. This book offers an introduction to this mathematical framework and describes tools from computational algebra for designing new algorithms for exact, accurate results.
Book Description
The Handbook of Computational Molecular Biology offers a comprehensive, systematic treatment of computational biology, from the most basic concepts to advanced applications. Algorithmic in nature, the handbook highlights applications to molecular biology through every topic covered. In addition, many of the newer topics in the field are covered in depth, like microarrays, comparative genomics and external memory algorithms, and parallel methods. Written by experts in the field, it covers problems related to understanding genetic diseases, the design of drugs tailored to the individual, deciphering the genomes of specific organisms, and understanding the process of evolution.
Download: http://rapidshare.com/files/40606015/Alur_HaoCoMoBi.rar
[hr]
Parallel Computing for Bioinformatics and Computational Biology
Book Description:
Discover how to streamline complex bioinformatics applications with parallel computing. This publication enables readers to handle more complex bioinformatics applications and larger and richer data sets. As the editor clearly shows, using powerful parallel computing tools can lead to significant breakthroughs in deciphering genomes, understanding genetic disease, designing customized drug therapies, and understanding evolution.
A broad range of bioinformatics applications is covered with demonstrations on how each one can be parallelized to improve performance and gain faster rates of computation. Current parallel computing techniques and technologies are examined, including distributed computing and grid computing. Readers are provided with a mixture of algorithms, experiments, and simulations that provide not only qualitative but also quantitative insights into the dynamic field of bioinformatics.
Parallel Computing for Bioinformatics and Computational Biology is a contributed work that serves as a repository of case studies, collectively demonstrating how parallel computing streamlines difficult problems in bioinformatics and produces better results. Each of the chapters is authored by an established expert in the field and carefully edited to ensure a consistent approach and high standard throughout the publication.
Aims and scope
The journal will publish highly quality papers in the field discussed below. The archival purpose of journals imposes that papers must have lasting importance and value over time. Therefore only established results will be considered for publication. Since we aim at building a bridge journal between different research communities that are approaching biological systems from different perspectives, we must consider a broad community of authors and topics, although all related to dynamic aspects of bioinformatics. Therefore, the scope of the journal includes, but is not limited to:
Formal languages for modeling biological structures and processes
Analysis and verification techniques and tools for biological behavior
Simulation techniques and tools for biological systems
Bio-inspired languages, computational models and computing
Biological Databases and Query Languages for Cell Models
Modeling Environments and Tools for biological systems
Numerical techniques for the analysis of biological systems
Formal assessment of experimental data quality and reliability
Automated Deduction for Biological Systems
Visualization techniques for complex models
Computational and Logical Aspects of the Analysis of Biological systems
Logics and tools for biological systems
Inference, modelling, and engineering of complex biological networks
Advances in methodology for modeling biological systems
Parallel and distributed simulation of cellular systems
Mathematical and Informational Models of Biological Systems
Advances in methodology for modeling biological systems
Advances in theory of biological systems
Formal Molecular Biology and evolutionary Models
Self-assembly in Biological Systems
Systems biology in early evolution - the origins of biological networks
[hr] Transactions on Computational Systems Biology I
Book Description:
The LNCS journal Transactions on Computational Systems Biology is devoted to inter- and multidisciplinary research in the fields of computer science and life sciences and supports a paradigmatic shift in the techniques from computer and information science to cope with the new challenges arising from the systems oriented point of view of biological phenomena.
This first volume of the Transactions on Computational Systems Biology is made up of papers by members of the journal's Editorial Board to provide a representative and smart start-up to the new journal.
Book Description:
The LNCS journal Transactions on Computational Systems Biology is devoted to inter- and multidisciplinary research in the fields of computer science and life sciences and supports a paradigmatic shift in the techniques from computer and /read.freeduan.com/information science to cope with the new challenges arising from the systems oriented point of view of biological phenomena.
This second volume of the Transactions on Computational Systems Biology is devoted to considerably extended versions of selected papers presented at the International Workshop on Bioinformatics Research and Applications (IWBRA 2005), part of the International Conference on Computational Science (ICCS 2005), which took place at Emory University, Atlanta, Georgia, USA, in May 2005.
The ten papers selected for the special issue cover a wide range of bioinformatics research such as problems in RNA structure prediction, coding schemes and structural alphabets for protein structure prediction, novel techniques for efficient gene transfer in phylogenetic networks, practical algorithms minimizing recombinations in pedigree phasing, parallel implementation in Open MP for finding the corresponding shortest edit distance between two signed gene permutations, and bioinformatics problems in DNA microarrays.
Transactions on Computational Systems Biology III
Book Description
The LNCS journal Transactions on Computational Systems Biology is devoted to inter- and multidisciplinary research in the fields of computer science and life sciences and supports a paradigmatic shift in the techniques from computer and information science to cope with the new challenges arising from the systems-oriented point of view of biological phenomena.
This, the third Transactions on Computational Systems Biology volume, edited by Emanuela Merelli, Pedro Pablo Gonzalez and Andrea Omicini, is devoted to considerably extended /read.freeduan.com/versions of selected papers presented at the International Workshop on Network Tools and Applications in Biology (NETTAB 2004), held at the University of Camerino, in Camerino, Italy, in September 2004.
Dedicated especially to models and metaphors from biology to bioinformatics tools, the 10 papers selected for the special issue cover a wide range of bioinformatics research such as data visualisation, protein/RNA structure prediction, motif finding, modelling and simulation of protein interaction, genetic linkage analysis, and notations and models for systems biology.
Transactions on Computational Systems Biology IV
Book Description
The LNCS journal Transactions on Computational Systems Biology is devoted to inter- and multidisciplinary research in the fields of computer science and life sciences and supports a paradigmatic shift in the techniques from computer and information science to cope with the new challenges arising from the systems oriented point of view of biological phenomena.
This, the 4th Transactions on Computational Systems Biology volume, contains carefully selected and enhanced contributions presented at the first Converging Science conference held at the University of Trento, Italy, in December 2004.
Dedicated especially to models and metaphors from biology to bioinformatics tools, the 11 papers selected for the special issue cover a wide range of bioinformatics research, such as foundations of global computing, interdisciplinarity in innovation initiatives, convergence of sciences, biodiversity, the concept of e-science, programming languages in /read.freeduan.com/systems biology, neuronal cells, bioinspired autonomic computing, digitalization and telecommunications, quantitative modeling of gene networks, and protein/RNA structure prediction.
Book Description
This book provides simultaneously a design blueprint, user guide, research agenda, and communication platform for current and future developments in artificial intelligence (AI) approaches to systems biology. It places an emphasis on the molecular dimension of life phenomena and in one chapter on anatomical and functional modeling of the brain.
As design blueprint, the book is intended for scientists and other professionals tasked with developing and using AI technologies in the context of life sciences research. As a user guide, this volume addresses the requirements of researchers to gain a basic understanding of key AI methodologies for life sciences research. Its emphasis is not on an intricate mathematical treatment of the presented AI methodologies. Instead, it aims at providing the users with a clear understanding and practical know-how of the methods. As a research agenda, the book is intended for computer and life science students, teachers, researchers, and managers who want to understand the state of the art of the presented methodologies and the areas in which gaps in our knowledge demand further research and development. Our aim was to maintain the readability and accessibility of a textbook throughout the chapters, rather than compiling a mere reference manual. The book is also intended as a communication platform seeking to bride the cultural and technological gap among key systems biology disciplines. To support this function, contributors have adopted a terminology and approach that appeal to audiences from different backgrounds.
The emerging field of systems biology involves the application of experimental, theoretical, and modeling techniques to the study of biological organisms at all levels, from the molecular, through the cellular, to the behavioral. Its aim is to understand biological processes as whole systems instead of as isolated parts. Developments in the field have been made possible by advances in molecular biology--in particular, new technologies for determining DNA sequence, gene expression profiles, protein-protein interactions, and so on. Foundations of Systems Biology provides an overview of the state of the art of the field. The book covers the central topics of systems biology: comprehensive and automated measurements, reverse engineering of genes and metabolic networks from experimental data, software issues, modeling and simulation, and system-level analysis.
Hiroaki Kitano is Director of the ERATO Kitano Symbiotic Systems Project of the Japan Science and Technology Corporation and a Senior Researcher at Sony Computer Science Laboratories, Inc.
What is life? Has molecular biology given us a satisfactory answer to this question? And if not, why, and how to carry on from there? This book examines life not from the reductionist point of view, but rather asks the question: 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 has been deliberately kept fairly non-technical so as to address a broad spectrum of students and researchers from the natural sciences and informatics.
This book aims to review the current status of plantmetabolomics research. Since metabolomics itself is a new field, no such comprehensive book has yet been published. The chapters are divided into three sections: analytical technology, bioinformatics, and applications. These represent threemajor elements of metabolomics research. Each chapter provides cutting-edge information contributed by leading researchers from throughout the world.
Mathematics for Life Science and Medicine includes a wide variety of stimulating fields, such as epidemiology, and gives an overview of the theoretical study of infectious disease dynamics and evolution. We hope that the book will be useful as a source of future research projects on various aspects of infectious disease dynamics. It is also hoped that the book will be useful to graduate students in the mathematical and biological sciences, as well as to those in some areas of engineering and medicine. Readers should have had a course in calculus, and knowledge of basic differential equations would be helpful.
荣誉嘉宾
发表于 07-9-9 15:51:03
| 
