The UCSC Genome Browser database: extensions and updates 2013

Laurence Meyer(Pennsylvania State University), Ann S. Zweig(Pennsylvania State University), Angie S. Hinrichs(Pennsylvania State University), Donna Karolchik(Pennsylvania State University), Robert M. Kuhn(Pennsylvania State University), Matthew Wong(Pennsylvania State University), Cricket A. Sloan(Pennsylvania State University), Kate R. Rosenbloom(Pennsylvania State University), Greg R. Roe(Pennsylvania State University), Brooke Rhead(Pennsylvania State University), Brian J. Raney(Pennsylvania State University), Andy Pohl(Pennsylvania State University), Venkat S. Malladi(Pennsylvania State University), Chin H. Li(Pennsylvania State University), Brian T. Lee(Pennsylvania State University), Katrina Learned(Pennsylvania State University), Vanessa M. Kirkup(Pennsylvania State University), Fan Hsu(Pennsylvania State University), Steve Heitner(Pennsylvania State University), Rachel Harte(Pennsylvania State University), Maximilian Haeussler(Pennsylvania State University), Luvina Guruvadoo(Pennsylvania State University), Mary J. Goldman(Pennsylvania State University), Belinda Giardine(Pennsylvania State University), Pauline A. Fujita(Pennsylvania State University), Timothy R. Dreszer(Pennsylvania State University), Mark Diekhans(Pennsylvania State University), Melissa Cline(Pennsylvania State University), Hiram Clawson(Pennsylvania State University), Galt P Barber(Pennsylvania State University), David Haussler(Pennsylvania State University), W. James Kent(Pennsylvania State University)
Nucleic Acids Research
November 15, 2012
10.1093/nar/gks1048
Cited by 921Open Access
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Abstract

The University of California Santa Cruz (UCSC) Genome Browser (http://genome.ucsc.edu) offers online public access to a growing database of genomic sequence and annotations for a wide variety of organisms. The Browser is an integrated tool set for visualizing, comparing, analysing and sharing both publicly available and user-generated genomic datasets. As of September 2012, genomic sequence and a basic set of annotation 'tracks' are provided for 63 organisms, including 26 mammals, 13 non-mammal vertebrates, 3 invertebrate deuterostomes, 13 insects, 6 worms, yeast and sea hare. In the past year 19 new genome assemblies have been added, and we anticipate releasing another 28 in early 2013. Further, a large number of annotation tracks have been either added, updated by contributors or remapped to the latest human reference genome. Among these are an updated UCSC Genes track for human and mouse assemblies. We have also introduced several features to improve usability, including new navigation menus. This article provides an update to the UCSC Genome Browser database, which has been previously featured in the Database issue of this journal.

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