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.
Fujita
Pauline A
PA
Center for Biomolecular Science and Engineering, School of Engineering, University of California Santa Cruz, Santa Cruz, CA 95064, USA.
Rhead
Brooke
B
Zweig
Ann S
AS
Hinrichs
Angie S
AS
Karolchik
Donna
D
Cline
Melissa S
MS
Goldman
Mary
M
Barber
Galt P
GP
Clawson
Hiram
H
Coelho
Antonio
A
Diekhans
Mark
M
Dreszer
Timothy R
TR
Giardine
Belinda M
BM
Harte
Rachel A
RA
Hillman-Jackson
Jennifer
J
Hsu
Fan
F
Kirkup
Vanessa
V
Kuhn
Robert M
RM
Learned
Katrina
K
Li
Chin H
CH
Meyer
Laurence R
LR
Pohl
Andy
A
Raney
Brian J
BJ
Rosenbloom
Kate R
KR
Smith
Kayla E
KE
Haussler
David
D
Kent
W James
WJ
D000818:Animals; D030541:Databases, Genetic; D004194:Disease / Q000235:genetics; D005796:Genes; D015894:Genome, Human; D023281:Genomics; D015186:Hominidae / Q000235:genetics; D006801:Humans; D020407:Internet; D058977:Molecular Sequence Annotation; D010641:Phenotype; D017393:RNA Editing; D012984:Software