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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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