The UCSC Genome Browser Database: Update 2009

Kuhn, R. M., Karolchik, D., Zweig, A. S., Wang, T., Smith, K. E., Rosenbloom, K. R., Rhead, B., Raney, B. J., Pohl, A., Pheasant, M., Meyer, L., Hsu, F., Hinrichs, A. S., Harte, R. A., Giardine, B, Fujita, P., Diekhans, M., Dreszer, T., Clawson, H., Barber, G. P., Haussler, D. and Kent, W. J. (2009) The UCSC Genome Browser Database: Update 2009. Nucleic Acids Research, 37 Supp.1: D755-D761. doi:10.1093/nar/gkn875

Author Kuhn, R. M.
Karolchik, D.
Zweig, A. S.
Wang, T.
Smith, K. E.
Rosenbloom, K. R.
Rhead, B.
Raney, B. J.
Pohl, A.
Pheasant, M.
Meyer, L.
Hsu, F.
Hinrichs, A. S.
Harte, R. A.
Giardine, B
Fujita, P.
Diekhans, M.
Dreszer, T.
Clawson, H.
Barber, G. P.
Haussler, D.
Kent, W. J.
Title The UCSC Genome Browser Database: Update 2009
Journal name Nucleic Acids Research   Check publisher's open access policy
ISSN 0305-1048
Publication date 2009-01
Sub-type Article (original research)
DOI 10.1093/nar/gkn875
Open Access Status DOI
Volume 37
Issue Supp.1
Start page D755
End page D761
Total pages 7
Place of publication Oxford, U.K.
Publisher Oxford University Press
Language eng
Formatted abstract
The UCSC Genome Browser Database (GBD, is a publicly available collection of genome assembly sequence data and integrated annotations for a large number of organisms, including extensive comparative-genomic resources. In the past year, 13 new genome assemblies have been added, including two important primate species, orangutan and marmoset, bringing the total to 46 assemblies for 24 different vertebrates and 39 assemblies for 22 different invertebrate animals. The GBD datasets may be viewed graphically with the UCSC Genome Browser, which uses a coordinate-based display system allowing users to juxtapose a wide variety of data. These data include all mRNAs from GenBank mapped to all organisms, RefSeq alignments, gene predictions, regulatory elements, gene expression data, repeats, SNPs and other variation data, as well as pairwise and multiple-genome alignments. A variety of other bioinformatics tools are also provided, including BLAT, the Table Browser, the Gene Sorter, the Proteome Browser, VisiGene and Genome Graphs.
Keyword Project
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Non-UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: ERA 2012 Admin Only
School of Chemistry and Molecular Biosciences
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