UNIT 1.4 The UCSC Genome Browser
Published Online: 1 MAR 2007
Copyright © 2007 by John Wiley and Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Karolchik, D., Hinrichs, A. S. and Kent, W. J. 2007. The UCSC Genome Browser. Current Protocols in Bioinformatics. 17:1.4:1.4.1–1.4.24.
- Published Online: 1 MAR 2007
- Published Print: MAR 2007
This is not the most recent version of the article. View current version (1 DEC 2012)
The University of California Santa Cruz (UCSC) Genome Browser (genome.ucsc.edu) is a popular Web-based tool for quickly displaying a requested portion of a genome at any scale, accompanied by a series of aligned annotation “tracks”. The annotations—generated by the UCSC Genome Bioinformatics Group and external collaborators—display gene predictions, mRNA and expressed sequence tag alignments, simple nucleotide polymorphisms, expression and regulatory data, and pairwise and multiple-species comparative genomics data. All information relevant to a region is presented in one window, facilitating biological analysis and interpretation. The database tables underlying the Genome Browser tracks can be viewed, downloaded, and manipulated using another Web-based application, the UCSC Table Browser. Users can upload personal data as custom annotation tracks in both browsers for research or educational use. This unit describes how to use the Genome Browser and Table Browser for genome analysis, download the underlying database tables, and create and display custom annotation tracks.
- Genome Browser;
- Table Browser;
- human genome;
- genome analysis;
- comparative genomics