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miRBase: the microRNA database
miRBase provides the following services:
- The miRBase database is a searchable database of published miRNA sequences and annotation. Each entry in the miRBase Sequence database represents a predicted hairpin portion of a miRNA transcript (termed mir in the database), with information on the location and sequence of the mature miRNA sequence (termed miR). Both hairpin and mature sequences are available for searching and browsing, and entries can also be retrieved by name, keyword, references and annotation. All sequence and annotation data are also available for download.
- The miRBase Registry provides miRNA gene hunters with unique names for novel miRNA genes prior to publication of results. Visit the help pages for more information about the naming service.
- The miRBase Targets database and pipeline has been rebranded as microCosm, and is now hosted at the EBI. The microCosm resource continues to be maintained by the Enright group. miRBase currently links miRNAs to targets predicted by microCosm, TargetScan and Pictar, and aims to provide a more extensive target prediction aggregation service in the future.
To receive email notification of data updates and feature changes please subscribe to the miRBase announcements mailing list. Any queries about the website or naming service should be directed at mirbase@manchester.ac.uk.
miRBase is hosted and maintained in the Faculty of Life Sciences at the University of Manchester with funding from the BBSRC, and was previously hosted and supported by the Wellcome Trust Sanger Institute.
References
If you make use of the data presented here, please cite the following articles in addition to the primary data sources:
miRBase: integrating microRNA annotation and deep-sequencing data.
Kozomara A, Griffiths-Jones S.
NAR 2011 39(Database Issue):D152-D157
miRBase:
tools for microRNA genomics.
Griffiths-Jones S, Saini HK, van Dongen S, Enright AJ.
NAR 2008 36(Database Issue):D154-D158
miRBase:
microRNA sequences, targets and gene nomenclature.
Griffiths-Jones S, Grocock RJ, van Dongen S, Bateman A, Enright
AJ.
NAR 2006 34(Database Issue):D140-D144
The microRNA Registry.
Griffiths-Jones S.
NAR 2004 32(Database Issue):D109-D111
The following publications provide guidelines on miRNA annotation:
A uniform system for microRNA annotation.
Ambros V, Bartel B, Bartel DP, Burge CB, Carrington JC, Chen X, Dreyfuss G, Eddy SR, Griffiths-Jones S, Marshall M, Matzke M, Ruvkun G, Tuschl T.
RNA 2003 9(3):277-279
Criteria
for annotation of plant MicroRNAs.
Meyers BC, Axtell MJ, Bartel B, Bartel DP, Baulcombe D, Bowman JL, Cao
X, Carrington JC, Chen X, Green PJ, Griffiths-Jones S, Jacobsen SE,
Mallory AC, Martienssen RA, Poethig RS, Qi Y, Vaucheret H, Voinnet O, Watanabe Y,
Weigel D, Zhu JK.
Plant Cell. 2008 20(12):3186-3190