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The UCSC Genome Browser Database: 2008 update.

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/.

Pubmed ID: 18086701

Authors

  • Karolchik D
  • Kuhn RM
  • Baertsch R
  • Barber GP
  • Clawson H
  • Diekhans M
  • Giardine B
  • Harte RA
  • Hinrichs AS
  • Hsu F
  • Kober KM
  • Miller W
  • Pedersen JS
  • Pohl A
  • Raney BJ
  • Rhead B
  • Rosenbloom KR
  • Smith KE
  • Stanke M
  • Thakkapallayil A
  • Trumbower H
  • Wang T
  • Zweig AS
  • Haussler D
  • Kent WJ

Journal

Nucleic acids research

Publication Data

January 15, 2008

Associated Grants

  • Agency: NHGRI NIH HHS, Id: 2 P41 HG002371-06
  • Agency: NHGRI NIH HHS, Id: 3 P41 HG002371-06S1
  • Agency: NCI NIH HHS, Id: N01-CO-12400
  • Agency: NHGRI NIH HHS, Id: U54 HG004555

Mesh Terms

  • Animals
  • Computer Graphics
  • Databases, Nucleic Acid
  • Genetic Variation
  • Genomics
  • Humans
  • Internet
  • Invertebrates
  • Sequence Alignment
  • User-Computer Interface
  • Vertebrates