Pub. Date:
Springer-Verlag New York, LLC
Introduction to Bioinformatics: A Theoretical And Practical Approach / Edition 1

Introduction to Bioinformatics: A Theoretical And Practical Approach / Edition 1

by Stephen A. Krawetz, David D. Womble


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Product Details

ISBN-13: 9781588292414
Publisher: Springer-Verlag New York, LLC
Publication date: 01/31/2003
Edition description: 2003
Pages: 746
Product dimensions: 7.01(w) x 10.00(h) x 0.06(d)

Table of Contents

Part I. Biochemistry, Cell, and Molecular Biology

A. The Cell

Nucleic Acids and Proteins: Modern Linguistics for the Genomics and Bioinformatics Era

Bradley C. Hyman

Structure and Function of Cell Organelles

Jon Holy

Cell Signaling

Daniel A. Rappolee

B. Transcription and Translation

DNA Replication, Repair, and Recombination

Linda B. Bloom

Transcription, RNA Processing, and Translation

Thomas P. Yang and Thomas W. O'Brien

Part II. Molecular Genetics

A. Genomics

Epigenetic Mechanisms Regulating Gene Expression

John R. McCarrey

Gene Families and Evolution

Ben F. Koop

Repetitive DNA: Detection, Annotation, and Analysis

Jerzy Jurka

Molecular Genetics of Disease and the Human Genome Project

Paromita Deb-Rinker and Stephen W. Scherer

B. Clinical Human Genetics


C. A. Rupar

The Clinical Genetics Databases

Peter J. Bridge

Population Genetics

Jill S. Barnholtz-Sloan

Part III. The UNIX Operating System

A. Basics and Installation

Introduction to UNIX for Biologists

David D. Womble

Installation of the Sun Solaris™ Operating Environment

Bryon Campbell

Sun System Administration

Bryon Campbell

B. Managing Bioinformatics Tools

Installing Bioinformatics Software in a Server-Based Computing Environment

Brian Fristensky

Management of a Server-Based Bioinformatics Resource

Brian Fristensky

C. Command Line Sequence Analysis

GCG File Management

Sittichoke Saisanit

GCG Sequence Analysis

Sittichoke Saisanit

Part IV. Computer Applications

A. Management and Analysis of DNA Sequencing Projects and Sequences

Managing Sequencing Projects in the GAP4 Environment

Rodger Staden, David P. Judge, and James K. Bonfield

OLIGO Primer Analysis Software

John D. Offerman and Wojciech Rychlik

Statistical Modeling of DNA Sequences and Patterns

Gautam B. Singh

Statistical Mining of the Matrix Attachment Regions in Genomic Sequences

Gautam B. Singh

Analyzing Sequences Using the Staden Package and EMBOSS

Rodger Staden, David P. Judge, and James K. Bonfield

B. The Genome Database: Analysis and Similarity Searching

Ensembl: An Open-Source Software Tool for Large-Scale Genome Analysis

James W. Stalker and Anthony V. Cox

The PIR for Functional Genomics and Proteomics

Cathy H. Wu

Sequence Similarity and Database Searching

David S. Wishart

GCG Database Searching

David J. Heard

C. Identifying Functional and Structural Sequence Elements

Pattern Discovery: Methods and Software

Brona Brejová, Tomás Vinar, and Ming Li

The Role of Transcription Factor Binding Sites in Promoters and Their In Silico Detection

Thomas Werner

An Introduction to Multiple Sequence Alignment and Analysis

Steven M. Thompson

3D Molecular Visualization with Protein Explorer

Eric Martz

Multiple Sequence Alignment and Analysis: The SeqLab Interface: A Practical Guide

Steven M. Thompson

D. Analysis of Gene Expression: Microarrays and Other Tools

Overview of the Tools for Microarray Analysis: Transcription Profiling, DNA Chips, and Differential Display

Jeffrey A. Kramer

Microarrays: Tools for Gene Expression Analysis

Sorin Draghici

Knowledge Discovery from the Human Transcriptome

Kousaku Okubo and Teruyoshi Hishiki

Part V. Appendices

Appendix 1: CD Contents

Appendix 2: A Collection of Useful Bioinformatic Tools and Molecular Tables

Appendix 3: Simple UNIX Commands


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