Introduction to Bioinformatics: 1st Edition (Paperback) book cover

Introduction to Bioinformatics

1st Edition

By Anna Tramontano

Chapman and Hall/CRC

192 pages | 8 Color Illus. | 68 B/W Illus.

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Description

Guiding readers from the elucidation and analysis of a genomic sequence to the prediction of a protein structure and the identification of the molecular function, Introduction to Bioinformatics describes the rationale and limitations of the bioinformatics methods and tools that can help solve biological problems. Requiring only a limited mathematical and statistical background, the book shows how to efficiently apply these approaches to biological data and evaluate the resulting information.

The author, an expert bioinformatics researcher, first addresses the ways of storing and retrieving the enormous amount of biological data produced every day and the methods of decrypting the information encoded by a genome. She then covers the tools that can detect and exploit the evolutionary and functional relationships among biological elements. Subsequent chapters illustrate how to predict the three-dimensional structure of a protein. The book concludes with a discussion of the future of bioinformatics.

Even though the future will undoubtedly offer new tools for tackling problems, most of the fundamental aspects of bioinformatics will not change. This resource provides the essential information to understand bioinformatics methods, ultimately facilitating in the solution of biological problems.

Reviews

“… Overall, the book is well organized and clearly written. This book is a good mixture of theory and practical applications. … graduate and research students of biostatistics who want to pursue a career in experimental biology will enjoy this book. In addition, practitioners in cancer research and forensic science will find this book quite useful. I also recommend it for library purchase.”

—Kuldeep Kumar (Bond University), Journal of the Royal Statistical Society

"…Introduction to Bioinformatics serves a noble purpose … Tramontano’s added emphasis on proteomics should serve as an indication of a major current focus of bioinformatics and also to welcome Introduction to Bioinformatics into the canon of bioinformatics-related literature."

—Eric D. Foster, University of Iowa, The American Statistician, August 2008

"This book provides a nice summary of introductory topics in bioinformatics, suitable for higher-level undergraduates with some biological background looking to enter the field or masters-level graduate students. … the subject matter is informative and well written for an introductory book."

International Statistical Review, 2008

“By reading the book from cover to cover, the reader will acquire a sense of the richness of the field of bioinformatics.”

—Jonathan Hodgson, Zentralblatt Math, Vol. 1115 (2007/17)

Table of Contents

The Data: Storage and Retrieval

Basic Principles

The Data

Data Quality

Data Representation

Genome Sequence Analysis

Basic Concepts

Genome Sequencing

Finding the Genes

Statistical Methods to Search for Genes

Comparative Genomics

A Virtual Window on Genomes: The World Wide Web

Protein Evolution

Basic Concepts

Molecular Evolution

How to Align Two Similar Sequences

Similarity Matrices

Penalties for Insertions and Deletions

The Alignment Algorithm

Multiple Alignments

Phylogenetic Trees

Similarity Searches in Databases

Basic Principles

The Methods

Amino Acid Sequence Analysis

Basic Principles

Search for Sequence Patterns

Feature Extraction

Secondary Structure: Part One

Prediction of the Three-Dimensional Structure of a Protein

Basic Principles

The CASP Experiment

Secondary Structure Prediction: Part Two

Long-Range Contact Prediction

Predicting Molecular Complexes: Docking Methods

Homology Modeling

Basic Principles

The Steps of Comparative Modeling

Accuracy of Homology Models

Manual versus Automatic Models

Practical Notes

Summing Up

Fold Recognition Methods

Basic Principles

Profile-Based Methods

Threading Methods

The Fold Library

How Well Do These Methods Work?

New Fold Modeling

Basic Principles

Estimating the Energy of a Protein Conformation

Energy Minimization

Molecular Dynamics

The “Omics” Universe

Basic Principles

Transcriptomics

Proteomics

Interactomics

Structural Genomics

Pharmacogenomics

But This Is Not All

Useful Web Sites

Index

A Glossary, References, and Problems appear in each chapter.

About the Series

Chapman & Hall/CRC Mathematical and Computational Biology

Learn more…

Subject Categories

BISAC Subject Codes/Headings:
MAT003000
MATHEMATICS / Applied
MAT029000
MATHEMATICS / Probability & Statistics / General
SCI010000
SCIENCE / Biotechnology