title: ENCODE whole-genome data in the UCSC Genome Browser: update 2012.
abstract: The Encyclopedia of DNA Elements (ENCODE) Consortium is entering its 5th year of production-level effort generating high-quality whole-genome functional annotations of the human genome. The past year has brought the ENCODE compendium of functional elements to critical mass, with a diverse set of 27 biochemical assays now covering 200 distinct human cell types. Within the mouse genome, which has been under study by ENCODE groups for the past 2 years, 37 cell types have been assayed. Over 2000 individual experiments have been completed and submitted to the Data Coordination Center for public use. UCSC makes this data available on the quality-reviewed public Genome Browser (http://genome.ucsc.edu) and on an early-access Preview Browser (http://genome-preview.ucsc.edu). Visual browsing, data mining and download of raw and processed data files are all supported. An ENCODE portal (http://encodeproject.org) provides specialized tools and information about the ENCODE data sets.
authors.affiliation: Center for Biomolecular Science and Engineering, School of Engineering, University of California Santa Cruz, Santa Cruz, CA 95064, USA. kate@soe.ucsc.edu
authors.forename: Kate R
authors.initials: KR
authors.lastname: Rosenbloom
authors.forename: Timothy R
authors.initials: TR
authors.lastname: Dreszer
authors.forename: Jeffrey C
authors.initials: JC
authors.lastname: Long
authors.forename: Venkat S
authors.initials: VS
authors.lastname: Malladi
authors.forename: Cricket A
authors.initials: CA
authors.lastname: Sloan
authors.forename: Brian J
authors.initials: BJ
authors.lastname: Raney
authors.forename: Melissa S
authors.initials: MS
authors.lastname: Cline
authors.forename: Donna
authors.initials: D
authors.lastname: Karolchik
authors.forename: Galt P
authors.initials: GP
authors.lastname: Barber
authors.forename: Hiram
authors.initials: H
authors.lastname: Clawson
authors.forename: Mark
authors.initials: M
authors.lastname: Diekhans
authors.forename: Pauline A
authors.initials: PA
authors.lastname: Fujita
authors.forename: Mary
authors.initials: M
authors.lastname: Goldman
authors.forename: Robert C
authors.initials: RC
authors.lastname: Gravell
authors.forename: Rachel A
authors.initials: RA
authors.lastname: Harte
authors.forename: Angie S
authors.initials: AS
authors.lastname: Hinrichs
authors.forename: Vanessa M
authors.initials: VM
authors.lastname: Kirkup
authors.forename: Robert M
authors.initials: RM
authors.lastname: Kuhn
authors.forename: Katrina
authors.initials: K
authors.lastname: Learned
authors.forename: Morgan
authors.initials: M
authors.lastname: Maddren
authors.forename: Laurence R
authors.initials: LR
authors.lastname: Meyer
authors.forename: Andy
authors.initials: A
authors.lastname: Pohl
authors.forename: Brooke
authors.initials: B
authors.lastname: Rhead
authors.forename: Matthew C
authors.initials: MC
authors.lastname: Wong
authors.forename: Ann S
authors.initials: AS
authors.lastname: Zweig
authors.forename: David
authors.initials: D
authors.lastname: Haussler
authors.forename: W James
authors.initials: WJ
authors.lastname: Kent
mesh_terms: D000818:Animals; D030561:Databases, Nucleic Acid; D016678:Genome; D015894:Genome, Human; D006801:Humans; D020407:Internet; D051379:Mice / Q000235:genetics*; D058977:Molecular Sequence Annotation; D012984:Software
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