RNAdb
NAR Molecular Biology Database Collection entry number 630
Pang K.C.1,2, Stephen S.1, EngstrÖm P.G.3, Tajul-Arifin K.1, Chen W.2, Wahlestedt C.3, Lenhard B.3, Hayashizaki Y.4, and Mattick J.S.1
1ARC Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD 4072 Australia;
2T Cell Laboratory, Ludwig Institute for Cancer Research, Austin & Repatriation Medical Centre, Heidelberg, VIC 3084 Australia;
3Center for Genomics and Bioinformatics, Karolinska Institutet, 171 77 Stockholm, Sweden;
4Laboratory for Genome Exploration Research Group, RIKEN Genomic Sciences Centre, Yokohama, Kanagawa 230-0045, Japan
2T Cell Laboratory, Ludwig Institute for Cancer Research, Austin & Repatriation Medical Centre, Heidelberg, VIC 3084 Australia;
3Center for Genomics and Bioinformatics, Karolinska Institutet, 171 77 Stockholm, Sweden;
4Laboratory for Genome Exploration Research Group, RIKEN Genomic Sciences Centre, Yokohama, Kanagawa 230-0045, Japan
Contact RNAdb@imb.uq.edu.au
Database Description
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. We have constructed a comprehensive mammalian noncoding RNA database (RNAdb) which contains over 800 unique experimentally studied noncoding 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 1,100 putative antisense ncRNAs and almost 20,000 putative noncoding RNAs 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.
Acknowledgements
We thank Jeff McDonald and Steve Scherer for providing us with information on ncRNAs identified by the chromosome 7 annotation project, as well as Carole Charlier for providing us with information on callipyge locus ncRNAs. K.P. is supported by the NHMRC with a Postgraduate Medical Research Scholarship (234711). W.C. is supported by a Wellcome Trust International Senior Research Fellow Fellowship (066646Z01Z). J.S.M. is supported by the Australian Research Council and the Queensland State Government.
Category: RNA sequence databases
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