title: RNAdb--a comprehensive mammalian noncoding RNA database.
abstract: In recent years, there have been increasing numbers of transcripts identified that do not encode proteins, many of which are developmentally regulated and appear to have regulatory functions. Here, we describe the construction of a comprehensive mammalian noncoding RNA database (RNAdb) which contains over 800 unique experimentally studied non-coding RNAs (ncRNAs), including many associated with diseases and/or developmental processes. The database is available at http://research.imb.uq.edu.au/RNAdb and is searchable by many criteria. It includes microRNAs and snoRNAs, but not infrastructural RNAs, such as rRNAs and tRNAs, which are catalogued elsewhere. The database also includes over 1100 putative antisense ncRNAs and almost 20,000 putative ncRNAs identified in high-quality murine and human cDNA libraries, with more to be added in the near future. Many of these RNAs are large, and many are spliced, some alternatively. The database will be useful as a foundation for the emerging field of RNomics and the characterization of the roles of ncRNAs in mammalian gene expression and regulation.
authors.affiliation: ARC Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland 4072, Australia.
authors.forename: Ken C
authors.initials: KC
authors.lastname: Pang
authors.forename: Stuart
authors.initials: S
authors.lastname: Stephen
authors.forename: Pär G
authors.initials: PG
authors.lastname: Engström
authors.forename: Khairina
authors.initials: K
authors.lastname: Tajul-Arifin
authors.forename: Weisan
authors.initials: W
authors.lastname: Chen
authors.forename: Claes
authors.initials: C
authors.lastname: Wahlestedt
authors.forename: Boris
authors.initials: B
authors.lastname: Lenhard
authors.forename: Yoshihide
authors.initials: Y
authors.lastname: Hayashizaki
authors.forename: John S
authors.initials: JS
authors.lastname: Mattick
mesh_terms: D000818:Animals; D030561:Databases, Nucleic Acid; D006801:Humans; D008322:Mammals / Q000235:genetics*; D051379:Mice; D022661:RNA, Untranslated / Q000737:chemistry*; D014584:User-Computer Interface
chemical_list: D022661:RNA, Untranslated