Bioinformatics Computing - B. Bergeron (PTC, 2002) WW

395 Pages·2002·5.21 MB·English

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Table of Contents
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Index

Bioinformatics Computing

By Bryan Bergeron

Publisher: Prentice Hall PTR

Pub Date: November 19, 2002

ISBN: 0-13-100825-0

Pages: 439

Slots: 1

In Bioinformatics Computing, Harvard Medical School and MIT faculty member Bryan Bergeron
presents a comprehensive and practical guide to bioinformatics for life scientists at every level of
training and practice. After an up-to-the-minute overview of the entire field, he illuminates every key
bioinformatics technology, offering practical insights into the full range of bioinformatics applications-
both new and emerging. Coverage includes:

G Technologies that enable researchers to collaborate more effectively

G Fundamental concepts, state-of-the-art tools, and "on the horizon" advances

G Bioinformatics information infrastructure, including GENBANK and other Web-based resources

G Very large biological databases: object-oriented database methods, data
mining/warehousing, knowledge management, and more

G 3D visualization: exploring the inner workings of complex biological structures

G Advanced pattern matching techniques, including microarray research and gene prediction

G Event-driven, time-driven, and hybrid simulation techniques

Bioinformatics Computing combines practical insight for assessing bioinformatics technologies,
practical guidance for using them effectively, and intelligent context for understanding their rapidly
evolving roles.

•
Table of Contents
•
Index

Bioinformatics Computing

By Bryan Bergeron

Publisher: Prentice Hall PTR

Pub Date: November 19, 2002

ISBN: 0-13-100825-0

Pages: 439

Slots: 1

Copyright

About Prentice Hall Professional Technical Reference

Preface

Organization of This Book

How to Use This Book

The Larger Context

Acknowledgments

Chapter 1. The Central Dogma

The Killer Application

Parallel Universes

Watson's Definition

Top-Down Versus Bottom-Up

Information Flow

Convergence

Endnote

Chapter 2. Databases

Definitions

Data Management

Data Life Cycle

Database Technology

Interfaces

Implementation

Endnote

Chapter 3. Networks

Geographical Scope

Communications Models

Transmissions Technology

Protocols

Bandwidth

Topology

Hardware

Contents

Security

Ownership

Implementation

Management

On the Horizon

Endnote

Chapter 4. Search Engines

The Search Process

Search Engine Technology

Searching and Information Theory

Computational Methods

Search Engines and Knowledge Management

On the Horizon

Endnote

Chapter 5. Data Visualization

Sequence Visualization

Structure Visualization

User Interface

Animation Versus Simulation

General-Purpose Technologies

On the Horizon

Endnote

Chapter 6. Statistics

Statistical Concepts

Microarrays

Imperfect Data

Basics

Quantifying Randomness

Data Analysis

Tool Selection

Statistics of Alignment

Clustering and Classification

On the Horizon

Endnote

Chapter 7. Data Mining

Methods

Technology Overview

Infrastructure

Pattern Recognition and Discovery

Machine Learning

Text Mining

Tools

On the Horizon

Endnote

Chapter 8. Pattern Matching

Fundamentals

Dot Matrix Analysis

Substitution Matrices

Dynamic Programming

Word Methods

Bayesian Methods

Multiple Sequence Alignment

Tools

On the Horizon

Endnote

Chapter 9. Modeling and Simulation

Drug Discovery

Fundamentals

Protein Structure

Systems Biology

Tools

On the Horizon

Endnote

Chapter 10. Collaboration

Collaboration and Communications

Standards

Issues

On the Horizon

Endnote

Bibliography

Chapter One—The Central Dogma

Chapter Two—Databases

Chapter Three—Networks

Chapter Four—Search Engines

Chapter Five—Data Visualization

Chapter Six—Statistics

Chapter Seven—Data Mining

Chapter Eight—Pattern Matching

Chapter Nine—Modeling and Simulation

Chapter Ten—Collaboration

Index

Copyright

Library of Congress Cataloging-in-Publication Data

A CIP catalogue record for this book can be obtained from the Library of Congress.

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