Bioinformatics Database Systems: 1st Edition (Hardback) book cover

Bioinformatics Database Systems

1st Edition

By Kevin Byron, Katherine G. Herbert, Jason T. L. Wang

CRC Press

270 pages | 50 B/W Illus.

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pub: 2016-12-15
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Description

Modern biological databases comprise not only data, but also sophisticated query facilities and bioinformatics data analysis tools. This book provides an exploration through the world of Bioinformatics Database Systems.

The book summarizes the popular and innovative bioinformatics repositories currently available, including popular primary genetic and protein sequence databases, phylogenetic databases, structure and pathway databases, microarray databases and boutique databases. It also explores the data quality and information integration issues currently involved with managing bioinformatics databases, including data quality issues that have been observed, and efforts in the data cleaning field.

Biological data integration issues are also covered in-depth, and the book demonstrates how data integration can create new repositories to address the needs of the biological communities. It also presents typical data integration architectures employed in current bioinformatics databases.

The latter part of the book covers biological data mining and biological data processing approaches using cloud-based technologies. General data mining approaches are discussed, as well as specific data mining methodologies that have been successfully deployed in biological data mining applications. Two biological data mining case studies are also included to illustrate how data, query, and analysis methods are integrated into user-friendly systems.

Aimed at researchers and developers of bioinformatics database systems, the book is also useful as a supplementary textbook for a one-semester upper-level undergraduate course, or an introductory graduate bioinformatics course.

About the Authors

Kevin Byron is a PhD candidate in the Department of Computer Science at the New Jersey Institute of Technology.

Katherine G. Herbert is Associate Professor of Computer Science at Montclair State University.

Jason T.L. Wang is Professor of Bioinformatics and Computer Science at the New Jersey Institute of Technology.

Table of Contents

OVERVIEW OF BIOINFORMATICS DATABASES

Introduction

Sequence Databases

Phylogenetic Databases

Structure And Pathway Databases

Microarray And Boutique Bioinformatics Databases

BIOLOGICAL DATA CLEANING

Introduction

General Data Cleaning

A Case Study In Biological Data Cleaning

BIOLOGICAL DATA INTEGRATION

Introduction

General Data Integration

Three Areas In Biological Data Integration

BIOLOGICAL DATA SEARCHING

Introduction

Biological Data Searching Using Blast

Biological Data Searching Using The Ucsc

Genome Browser And Blat

A Case Study In Phylogenetic Tree Database Search

A Case Study In Rna Pseudoknot Database Search

BIOLOGICAL DATA MINING

Introduction

General Data Mining

Biological Data Mining

A Case Study In Biological Pattern Discovery

A Case Study In Biological Data Mining

BIOLOGICAL NETWORK INFERENCE

Introduction

Gene Regulatory Network Inference

CLOUD-BASED BIOLOGICAL DATA PROCESSING

Introduction

Data Processing In The Cloud

Biological Data Processing In The Cloud

About the Originator

Author

Subject Categories

BISAC Subject Codes/Headings:
COM012040
COMPUTERS / Programming / Games
COM021000
COMPUTERS / Database Management / General
COM021030
COMPUTERS / Database Management / Data Mining
SCI008000
SCIENCE / Life Sciences / Biology / General