title: NONCODE v3.0: integrative annotation of long noncoding RNAs.
abstract: Facilitated by the rapid progress of high-throughput sequencing technology, a large number of long noncoding RNAs (lncRNAs) have been identified in mammalian transcriptomes over the past few years. LncRNAs have been shown to play key roles in various biological processes such as imprinting control, circuitry controlling pluripotency and differentiation, immune responses and chromosome dynamics. Notably, a growing number of lncRNAs have been implicated in disease etiology. With the increasing number of published lncRNA studies, the experimental data on lncRNAs (e.g. expression profiles, molecular features and biological functions) have accumulated rapidly. In order to enable a systematic compilation and integration of this information, we have updated the NONCODE database (http://www.noncode.org) to version 3.0 to include the first integrated collection of expression and functional lncRNA data obtained from re-annotated microarray studies in a single database. NONCODE has a user-friendly interface with a variety of search or browse options, a local Genome Browser for visualization and a BLAST server for sequence-alignment search. In addition, NONCODE provides a platform for the ongoing collation of ncRNAs reported in the literature. All data in NONCODE are open to users, and can be downloaded through the website or obtained through the SOAP API and DAS services.
authors.affiliation: Bioinformatics Research Group, Key Laboratory of Intelligent Information Processing, Advanced Computer Research Center, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, PR China.
authors.forename: Dechao
authors.initials: D
authors.lastname: Bu
authors.forename: Kuntao
authors.initials: K
authors.lastname: Yu
authors.forename: Silong
authors.initials: S
authors.lastname: Sun
authors.forename: Chaoyong
authors.initials: C
authors.lastname: Xie
authors.forename: Geir
authors.initials: G
authors.lastname: Skogerbø
authors.forename: Ruoyu
authors.initials: R
authors.lastname: Miao
authors.forename: Hui
authors.initials: H
authors.lastname: Xiao
authors.forename: Qi
authors.initials: Q
authors.lastname: Liao
authors.forename: Haitao
authors.initials: H
authors.lastname: Luo
authors.forename: Guoguang
authors.initials: G
authors.lastname: Zhao
authors.forename: Haitao
authors.initials: H
authors.lastname: Zhao
authors.forename: Zhiyong
authors.initials: Z
authors.lastname: Liu
authors.forename: Changning
authors.initials: C
authors.lastname: Liu
authors.forename: Runsheng
authors.initials: R
authors.lastname: Chen
authors.forename: Yi
authors.initials: Y
authors.lastname: Zhao
mesh_terms: D000818:Animals; D030561:Databases, Nucleic Acid; D020869:Gene Expression Profiling; D006801:Humans; D051379:Mice; D058977:Molecular Sequence Annotation; D022661:RNA, Untranslated / Q000737:chemistry* / Q000378:metabolism*; D018511:Systems Integration
chemical_list: D022661:RNA, Untranslated