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IMGT, the international ImMunoGeneTics database

Nucleic Acids Research
Oxford University Press
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gkl928 668..673 The UCSC genome browser database: update 2007 R. M. Kuhn*, D. Karolchik, A. S. Zweig, H. Trumbower, D. J. Thomas, A. Thakkapallayil, C. W. Sugnet, M. Stanke, K. E. Smith, A. Siepel2, K. R. Rosenbloom, B. Rhead, B. J. Raney, A. Pohl, J. S. Pedersen, F. Hsu, A. S. Hinrichs, R. A. Harte, M. Diekhans, H. Clawson, G. Bejerano, G. P. Barber, R. Baertsch, D. Haussler1 and W. J. Kent Center for Biomolecular Science and Engineering and 1Howard Hughes Medical Institute, University of California, Santa Cruz (UCSC), Santa Cruz, CA 95064, USA and 2Department of Biological Statistics andComputational Biology, Cornell University, Ithaca, NY 14853, USA Received September 14, 2006; Revised October 13, 2006; Accepted October 17, 2006 ABSTRACT The University of California, Santa Cruz Genome Browser Database contains, as of September 2006, sequence and annotation data for the genomes of 13 vertebrate and 19 invertebrate species. The Genome Browser displays a wide variety of annota- tions at all scales from the single nucleotide level up to a full chromosome and includes assembly data, genes and gene predictions, mRNA and EST alignments, and comparative genomics, regulation, expression and variation data. The database is optimized for fast interactive performance with web tools that provide powerful visualization and querying capabilities for mining the data. In the past year, 22 new assemblies and several new sets of human variation annotation have been released. New features include VisiGene, a fully integrated in situ hybridization image browser; phyloGif, for drawing evolutionary tree diagrams; a redesigned Custom Track feature; an expanded SNP annotation track; and many new display options. The Genome Browser, other tools, downloadable data files and links to documentation and other information can be found at INTRODUCTION The University of California, Santa Cruz (UCSC) Genome Browser (1,2) is a web-based interface that provides access to the finished

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