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      The UCSC Genome Browser database: extensions and updates 2013

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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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          Author and article information

          Journal
          Nucleic Acids Res
          Nucleic Acids Res
          nar
          nar
          Nucleic Acids Research
          Oxford University Press
          0305-1048
          1362-4962
          January 2013
          15 November 2012
          15 November 2012
          : 41
          : Database issue , Database issue
          : D64-D69
          Affiliations
          1Center for Biomolecular Science and Engineering, School of Engineering, University of California Santa Cruz (UCSC), Santa Cruz, CA 95064, USA, 2Centre for Genomic Regulation (CRG), C/ Dr. Aiguader, 88, 08003 Barcelona, Spain, 3Center for Comparative Genomics and Bioinformatics, Huck Institutes of the Life Sciences, Pennsylvania State University, University Park, PA 16802 and 4Howard Hughes Medical Institute, UCSC, Santa Cruz, CA 95064, USA
          Author notes
          *To whom correspondence should be addressed. Tel: +1 831 459 4937; Fax: +1 831 459 1809; Email: ann@ 123456soe.ucsc.edu
          Article
          gks1048
          10.1093/nar/gks1048
          3531082
          23155063
          b8c0222a-d4e7-4488-8f1f-7b1754a3b70c
          © The Author(s) 2012. Published by Oxford University Press.

          This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by-nc/3.0/), which permits non-commercial reuse, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com.

          History
          : 19 September 2012
          : 8 October 2012
          Page count
          Pages: 6
          Categories
          Articles

          Genetics
          Genetics

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