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Nucleic Acids Research Advance Access originally published online on December 6, 2006
Nucleic Acids Research 2007 35(Database issue):D716-D720; doi:10.1093/nar/gkl953
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Nucleic Acids Research, 2007, Vol. 35, Database issue D716-D720
© 2006 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Articles

Variation resources at UC Santa Cruz

Daryl J. Thomas1,2,*, Heather Trumbower2, Andrew D. Kern2, Brooke L. Rhead2, Robert M. Kuhn2, David Haussler1,2,3 and W. James Kent1,2

1 Department of Biomolecular Engineering, University of California at Santa Cruz Santa Cruz, CA, USA 2 Center for Biomolecular Science and Engineering, University of California at Santa Cruz Santa Cruz, CA, USA 3 Howard Hughes Medical Institute, University of California at Santa Cruz Santa Cruz, CA, USA

*To whom correspondence should be addressed at: Engineering 2, Suite 501, Mail stop CBSE/ITI, Santa Cruz, CA 95064, USA. Tel: +1 831 459 1544; Fax: +1 831 459 1809; Email: daryl{at}soe.ucsc.edu

Received August 15, 2006. Revised October 21, 2006. Accepted October 23, 2006.

The variation resources within the University of California Santa Cruz Genome Browser include polymorphism data drawn from public collections and analyses of these data, along with their display in the context of other genomic annotations. Primary data from dbSNP is included for many organisms, with added information including genomic alleles and orthologous alleles for closely related organisms. Display filtering and coloring is available by variant type, functional class or other annotations. Annotation of potential errors is highlighted and a genomic alignment of the variant's flanking sequence is displayed. HapMap allele frequencies and linkage disequilibrium (LD) are available for each HapMap population, along with non-human primate alleles. The browsing and analysis tools, downloadable data files and links to documentation and other information can be found at http://genome.ucsc.edu/.


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