The UCSC Genome Browser database: 2015 update.

TitleThe UCSC Genome Browser database: 2015 update.
Publication TypeJournal Article
Year of Publication2015
AuthorsRosenbloom KR, Armstrong J, Barber GP, Casper J, Clawson H, Diekhans M, Dreszer TR, Fujita PA, Guruvadoo L, Haeussler M, Harte RA, Heitner S, Hickey G, Hinrichs AS, Hubley R, Karolchik D, Learned K, Lee BT, Li CH, Miga KH, Nguyen N, Paten B, Raney BJ, Smit AFA, Speir ML, Zweig AS, Haussler D, Kuhn RM, Kent JW
JournalNucleic Acids Res
Volume43
IssueDatabase issue
PaginationD670-81
Date Published2015 Jan
ISSN1362-4962
KeywordsAnimals, Cricetinae, Databases, Nucleic Acid, Dogs, Ebolavirus, Gene Expression, Genome, Genomics, Internet, Mice, Molecular Sequence Annotation, Phenotype, Rats, Software
Abstract<p>Launched in 2001 to showcase the draft human genome assembly, the UCSC Genome Browser database (http://genome.ucsc.edu) and associated tools continue to grow, providing a comprehensive resource of genome assemblies and annotations to scientists and students worldwide. Highlights of the past year include the release of a browser for the first new human genome reference assembly in 4 years in December 2013 (GRCh38, UCSC hg38), a watershed comparative genomics annotation (100-species multiple alignment and conservation) and a novel distribution mechanism for the browser (GBiB: Genome Browser in a Box). We created browsers for new species (Chinese hamster, elephant shark, minke whale), 'mined the web' for DNA sequences and expanded the browser display with stacked color graphs and region highlighting. As our user community increasingly adopts the UCSC track hub and assembly hub representations for sharing large-scale genomic annotation data sets and genome sequencing projects, our menu of public data hubs has tripled.</p>
DOI10.1093/nar/gku1177
Alternate JournalNucleic Acids Res.
PubMed ID25428374
PubMed Central IDPMC4383971
Grant ListU41 HG002371 / HG / NHGRI NIH HHS / United States
5U01DE020057 / DE / NIDCR NIH HHS / United States
5U4HG002371 / HG / NHGRI NIH HHS / United States
1U24CA180951 / CA / NCI NIH HHS / United States
U41 HG007234 / HG / NHGRI NIH HHS / United States
5U19AI089987 / AI / NIAID NIH HHS / United States
U41 HG006992 / HG / NHGRI NIH HHS / United States
R01 HG002939 / HG / NHGRI NIH HHS / United States
090100 / / Howard Hughes Medical Institute / United States
5U24CA143858 / CA / NCI NIH HHS / United States
1U41HG006992 / HG / NHGRI NIH HHS / United States
5U41HG007234 / HG / NHGRI NIH HHS / United States