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The UCSC Genome Browser database: 2017 update.

  • Author(s): Tyner, Cath
  • Barber, Galt P
  • Casper, Jonathan
  • Clawson, Hiram
  • Diekhans, Mark
  • Eisenhart, Christopher
  • Fischer, Clayton M
  • Gibson, David
  • Gonzalez, Jairo Navarro
  • Guruvadoo, Luvina
  • Haeussler, Maximilian
  • Heitner, Steve
  • Hinrichs, Angie S
  • Karolchik, Donna
  • Lee, Brian T
  • Lee, Christopher M
  • Nejad, Parisa
  • Raney, Brian J
  • Rosenbloom, Kate R
  • Speir, Matthew L
  • Villarreal, Chris
  • Vivian, John
  • Zweig, Ann S
  • Haussler, David
  • Kuhn, Robert M
  • Kent, W James
  • et al.
Abstract

Since its 2001 debut, the University of California, Santa Cruz (UCSC) Genome Browser (http://genome.ucsc.edu/) team has provided continuous support to the international genomics and biomedical communities through a web-based, open source platform designed for the fast, scalable display of sequence alignments and annotations landscaped against a vast collection of quality reference genome assemblies. The browser's publicly accessible databases are the backbone of a rich, integrated bioinformatics tool suite that includes a graphical interface for data queries and downloads, alignment programs, command-line utilities and more. This year's highlights include newly designed home and gateway pages; a new 'multi-region' track display configuration for exon-only, gene-only and custom regions visualization; new genome browsers for three species (brown kiwi, crab-eating macaque and Malayan flying lemur); eight updated genome assemblies; extended support for new data types such as CRAM, RNA-seq expression data and long-range chromatin interaction pairs; and the unveiling of a new supported mirror site in Japan.

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