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Genomes, Browsers and Databases: Data-Mining Tools for Integrated Genomic Databases »

Book cover image of Genomes, Browsers and Databases: Data-Mining Tools for Integrated Genomic Databases by Peter Schattner

Authors: Peter Schattner
ISBN-13: 9780521884433, ISBN-10: 0521884438
Format: Hardcover
Publisher: Cambridge University Press
Date Published: July 2008
Edition: (Non-applicable)

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Author Biography: Peter Schattner

Originally trained as a theoretical physicist, Peter Schattner is currently a computational biologist at the University of California, Santa Cruz (UCSC). His principal research interests are in the genome-wide identification and characterization of non-protein-coding RNA genes and cis-regulatory mRNA motifs. Dr. Schattner has taught bioinformatics courses at the University of California and California State University and has worked in the research and development of medical ultrasound and magnetic resonance instrumentation at SRI (Stanford Research Institute) and Diasonics, Inc. He has been a Woodrow Wilson Fellow and was leader of the team that received the 1990 Matzuk Award for technical innovation from the American Institute of Ultrasound in Medicine.

Book Synopsis

Guide to key tools for large-scale gene-sequence and annotation comparisons for bioinformatics students and researchers.

Table of Contents

1. The molecular biology data explosion;
2. Introduction to genome browsing with the UCSC Genome Browser;
3. Browsing with Ensembl, Map Viewer and other genome browsers;
4. Interactive genome-database batch querying;
5. Interactive batch post-processing with Galaxy;
6. Introduction to programmed querying;
7. Using the Ensembl API;
8. Programmed querying with Ensembl, continued;
9. Introduction to the UCSC API;
10. More advanced application using the UCSC API;
11. Customized genome databases;
12. Genomes, browsers, databases - the future.

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