Bioinformatics Database Systems

This book explains the world of database systems to bioinformatics and cheminformatics database users. It begins with a survey of popular databases, including primary genetic and protein sequence, phylogenetic, structure and pathway, and microarray databases. The text discusses information management and modeling issues in these databases, addressing data quality issues as well as efforts in the data cleaning field to combat such problems. From drug discovery to the structure of various molecular components of the cell, the authors present new applications and case studies illustrating concepts in database systems.

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.