UCSC Genome Browser Database: 2008 update

• Published in: Nucleic acids research Vol. 36; no. suppl-1; pp. D773 - D779
• Main Authors: Karolchik, D, Kuhn, R.M, Baertsch, R, Barber, G.P, Clawson, H, Diekhans, M, Giardine, B, Harte, R.A, Hinrichs, A.S, Hsu, F, Kober, K.M, Miller, W, Pedersen, J.S, Pohl, A, Raney, B.J, Rhead, B, Rosenbloom, K.R, Smith, K.E, Stanke, M, Thakkapallayil, A, Trumbower, H, Wang, T, Zweig, A.S, Haussler, D, Kent, W.J
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 01.01.2008; Oxford Publishing Limited (England)
• Subjects: Animals; Computer Graphics; Databases, Nucleic Acid; Genetic Variation; Genomics; Humans; Internet; Invertebrates - genetics; Sequence Alignment; User-Computer Interface; Vertebrates - genetics
• ISSN: 0305-1048; 1362-4962
• DOI: 10.1093/nar/gkm966

The University of California, Santa Cruz, Genome Browser Database (GBD) provides integrated sequence and annotation data for a large collection of vertebrate and model organism genomes. Seventeen new assemblies have been added to the database in the past year, for a total coverage of 19 vertebrate and 21 invertebrate species as of September 2007. For each assembly, the GBD contains a collection of annotation data aligned to the genomic sequence. Highlights of this year's additions include a 28-species human-based vertebrate conservation annotation, an enhanced UCSC Genes set, and more human variation, MGC, and ENCODE data. The database is optimized for fast interactive performance with a set of web-based tools that may be used to view, manipulate, filter and download the annotation data. New toolset features include the Genome Graphs tool for displaying genome-wide data sets, session saving and sharing, better custom track management, expanded Genome Browser configuration options and a Genome Browser wiki site. The downloadable GBD data, the companion Genome Browser toolset and links to documentation and related information can be found at: http://genome.ucsc.edu/.