Genomes, browsers, and databases : data-mining tools for integrated genomic databases / Peter Schattner.

Format:

Book

Author/Creator:

Schattner, Peter, 1948-

Language:

English

Subjects (All):

Gene libraries.

Genomics--Data processing.

Genomics.

Databases.

Browsers (Computer programs).

Databases, Genetic.

Gene Library.

Molecular Biology.

Software.

User-Computer Interface.

Medical Subjects:

Databases, Genetic.

Genomics.

Gene Library.

Molecular Biology.

Software.

User-Computer Interface.

Physical Description:

xii, 328 pages : illustrations ; 26 cm

Other Title:

Genomes, browsers & databases

Place of Publication:

Cambridge ; New York : Cambridge University Press, 2008.

Summary:

The recent explosive growth of biological data has led to a rapid increase in the number of molecular biology databases. These databases are located in many different locations and often use varying interfaces and non-standard data formats. Consequently, integrating and comparing data from them can be difficult and time-consuming. This book provides an overview of the key tools currently available for large-scale comparisons of gene sequences and annotations, focusing on the databases and tools from the University of California, Santa Cruz (UCSC), Ensembl, and the National Center for Biotechnology Information (NCBI). Written specifically for biology and bioinformatics students and researchers, it aims to give an appreciation for the methods by which the browsers and their databases are constructed, enabling readers to determine which tool is the most appropriate for their requirements. Each chapter contains a summary and exercises to aid understanding and promote effective use of these important tools.

Contents:

The molecular biology data explosion

Introduction to genome browsing with the UCSC genome browser

Browsing with Ensembl, MapViewer, and other genome browsers

Interactive genome-database batch querying

Interactive batch post-processing with galaxy

Introduction to programmed querying

Using the Ensembl API

Programmed querying with Ensembl, continued

Introduction to the UCSC API

More advanced applications using the UCSC API

Customized genome databases

Genomes, browsers, databases: the future.

Notes:

Includes bibliographical references (pages 307-312) and index.

ISBN:

9780521884433

0521884438

9780521711326

0521711320

OCLC:

191751595

Online:

Contributor biographical information

Publisher description