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Bioinformatics in the Post-Genomic Era: Genome, Transcriptome, Proteome, and Information-Based Medicine,9780321173867
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Bioinformatics in the Post-Genomic Era: Genome, Transcriptome, Proteome, and Information-Based Medicine


Author(s): Augen, Jeff
ISBN10:  0321173864
ISBN13:  9780321173867
Format:  Paperback
Pub. Date:  1/1/2005
Publisher(s): Addison-Wesley Professional

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SummaryTable of Contents

"Augen's book provides a thorough review of bioinformatics that presages the coming era of information-based medicine."
?John Reynders, VP of Informatics, Celera Genomics

"Augen is to be congratulated on producing an indispensable book. He not only lays out and explains the essential tools in bioinformatics, but he also validates the critical role that computational biology will play in the future of medical research. This is a fabulous achievement?there is something here for novice and expert alike."
?Kevin Davies, Editor-in-Chief, Bio-IT World

"Jeff has created an erudite, yet amazingly accessible overview of the intersection between biology, biomedicine, and high-performance computing."
?Andrea Califano, Director, Genome Center Bioinformatics, Columbia University

"This book is essential for anyone wishing to understand the information technology transformation of the life sciences."
?W.R. Pulleyblank, Director, Deep Computing Institute, IBM Research

"Because of its unusually broad scope, Jeff Augen's new book has the capacity to deliver value to a wide variety of audiences. As a longtime investor in biotechnology and healthcare, I find the discussions surrounding the future of medicine and information technology particularly interesting and useful."
?G. Steven Burrill, Chief Executive Officer, Burrill and Company

"Augen takes you on a complete guided tour of computational biology, combining historical perspectives with discussions of the leading-edge technologies being employed today. This book would be useful for anyone in the field. It provides an entire overview to scientists new to computational biology, while giving experts detailed information about new developments in the field."
?Salvatore Salamone, Senior IT Editor, Bio-IT World and Health-IT World

"There are books about bioinformatics with a focus on information technology and books on molecular biology with a focus on bioscience, but I am not aware of any book that provides a summary of fundamentals of both bioscience and information science with a technical bridge between the two disciplines. This book is unique in covering theoretical and practical aspects of bioinformatics. Everyone from biologists and geneticists to computer scientists and engineers will benefit from Augen's book."
?O.K. Baek, Chief Architect, Biomedical Informatics and Information-Based Medicine, IBM

Today, advances in high-performance computing, data management, and the Internet are transforming many aspects of biomedical research and have produced a new generation of tools for studying gene and protein sequences, macromolecular structures, and metabolic systems. These tools have greatly accelerated the drug discovery and testing process and promise to change the way diseases are predicted and treated in the future.

Bioinformatics in the Post-Genomic Era is the first comprehensive look at the role of information technology in biological and medical research. Bridging these two disciplines, the book's structure parallels the flow of biological information from gene to message, protein, and metabolic system. Along the way, industry expert Jeff Augen covers both theoretical and practical aspects of bioinformatics, giving readers a vision of the future of medical research while providing technical details working professionals can use today.

  • Inside, you will find in-depth information on the following:
  • Gene and protein sequence databases
  • Bioinformatic tools
  • Transcription profiling
  • The proteome and the protein translation process
  • Protein structure prediction
  • Medical informatics and information-based medicine
  • Little-discussed topics such as transcription profiling of minor messages and pattern-discovery algorithms and neural networks
  • Cutting-edge developments such as high-throughput whole-genome sequencing, systems biology, and presymptomatic disease prediction.

Designed for both biomedical researchers and students, this book will become an indispensable aid to anyone seeking to understand the links between information technology, molecular biology, and clinical medicine.


© Copyright Pearson Education. All rights reserved.

Preface xv
Introduction
Overview
1(1)
Computationally Intense Problems: A Central Theme in Modern Biology
2(4)
Building the Public Infrastructure
6(1)
The Human Genome's Several Layers of Complexity
7(3)
Toward Personalized Medicine
10(1)
Illnesses are Polygenic
11(5)
New Science, New Infrastructure
16(2)
The Proactive Future of Information-Based Medicine
18(5)
Introduction to Bioinformatics
Introduction
23(1)
The Emergence of Bioinformatics
24(3)
The Public Database Infrastructure
27(3)
Building Database Infrastructure for Bioinformatics
30(49)
Traditional Bioinformatic Tools and Algorithms
79(21)
Summary
100(5)
Gene Structure
Introduction
105(2)
The Central Dogma of Molecular Biology
107(1)
The Genetic Code
108(10)
Structure and Content of the Genome
118(14)
Computational Techniques for the Identification of Genomic Features
132(9)
High-Throughput Gene Sequencing
141(4)
Summary
145(4)
Computational Techniques for Sequence Analysis
Introduction
149(1)
Hidden Markov Models
150(6)
Perceptrons and Neural Networks
156(14)
Pattern Discovery, Single Nucleotide Polymorphisms, and Haplotype Identification
170(10)
Summary
180(3)
Transcription
Introduction
183(3)
The Transcriptome
186(6)
Technologies for Transcriptional Profiling
192(8)
Hierarchical Clustering
200(34)
Summary
234(3)
Overview of the Proteome and the Protein Translation Process
Introduction
237(1)
Ribosomal Structure and the Protein Translation Process
238(8)
Special Features of the Eukaryotic-Translation Process
246(9)
Summary
255(4)
Protein Structure Prediction
Introduction
259(2)
Overview of Ab Initio and Database-Driven Approaches
261(2)
Overview of Protein Structure
263(13)
Protein Structure Databases
276(12)
Ab Initio Structure Prediction
288(8)
Predicting Lead---Target Interactions
296(3)
Summary
299(8)
Medical Informatics and Information-Based Medicine
Introduction
307(1)
The Continuous Evolution in Understanding that Leads to Genomic Medicine
308(6)
Electronic Medical Records
314(9)
Grid Computing and Medical Informatics
323(10)
Modeling and Predicting Disease
333(8)
Summary
341(6)
New Themes in Bioinformatics
Introduction
347(1)
Overview of Parallel Computing and Workflow Distribution in Bioinformatics
348(7)
Workflow Computing
355(4)
High-Performance Computing and Systems Biology
359(2)
The Delineation of Metabolic Pathways
361(6)
Systems Biology
367(7)
Summary
374(3)
Further Reading 377(2)
Index 379

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