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The UCSC Genome Browser database: update 2011.

The University of California, Santa Cruz Genome Browser (http://genome.ucsc.edu) offers online access to a database of genomic sequence and annotation data for a wide variety of organisms. The Browser also has many tools for visualizing, comparing and analyzing both publicly available and user-generated genomic data sets, aligning sequences and uploading user data. Among the features released this year are a gene search tool and annotation track drag-reorder functionality as well as support for BAM and BigWig/BigBed file formats. New display enhancements include overlay of multiple wiggle tracks through use of transparent coloring, options for displaying transformed wiggle data, a 'mean+whiskers' windowing function for display of wiggle data at high zoom levels, and more color schemes for microarray data. New data highlights include seven new genome assemblies, a Neandertal genome data portal, phenotype and disease association data, a human RNA editing track, and a zebrafish Conservation track. We also describe updates to existing tracks.

Pubmed ID: 20959295


  • Fujita PA
  • Rhead B
  • Zweig AS
  • Hinrichs AS
  • Karolchik D
  • Cline MS
  • Goldman M
  • Barber GP
  • Clawson H
  • Coelho A
  • Diekhans M
  • Dreszer TR
  • Giardine BM
  • Harte RA
  • Hillman-Jackson J
  • Hsu F
  • Kirkup V
  • Kuhn RM
  • Learned K
  • Li CH
  • Meyer LR
  • Pohl A
  • Raney BJ
  • Rosenbloom KR
  • Smith KE
  • Haussler D
  • Kent WJ


Nucleic acids research

Publication Data

January 23, 2011

Associated Grants

  • Agency: NHGRI NIH HHS, Id: P01HG5062
  • Agency: NHGRI NIH HHS, Id: P41HG002371
  • Agency: NICHD NIH HHS, Id: RC2HD064525
  • Agency: NIDCR NIH HHS, Id: U01DE20057
  • Agency: NIEHS NIH HHS, Id: U01ES017154
  • Agency: NHGRI NIH HHS, Id: U01HG004695
  • Agency: NCI NIH HHS, Id: U24CA143858
  • Agency: NHGRI NIH HHS, Id: U41HG004269
  • Agency: NHGRI NIH HHS, Id: U41HG004568
  • Agency: NHGRI NIH HHS, Id: U54HG004555
  • Agency: Howard Hughes Medical Institute, Id:

Mesh Terms

  • Animals
  • Databases, Genetic
  • Disease
  • Genes
  • Genome, Human
  • Genomics
  • Hominidae
  • Humans
  • Internet
  • Molecular Sequence Annotation
  • Phenotype
  • RNA Editing
  • Software