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Nucleic Acids Res. 2017 Jan 4;45(D1):D626-D634. doi: 10.1093/nar/gkw1134. Epub 2016 Nov 29.

The UCSC Genome Browser database: 2017 update.

Author information

1
Genomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, USA cath@ucsc.edu.
2
Genomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, USA.
3
Emory University School of Medicine, Atlanta, GA 30322, USA.
4
Howard Hughes Medical Institute, University of California Santa Cruz, CA 95064, USA.

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.

PMID:
27899642
PMCID:
PMC5210591
DOI:
10.1093/nar/gkw1134
[Indexed for MEDLINE]
Free PMC Article

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