miRBase
 | |
| Content | |
|---|---|
| Description | microRNA database |
| Contact | |
| Research center | University of Manchester |
| Authors | Ana Kozomara |
| Primary citation | Kozomara & al. (2011)[1] |
| Release date | 2010 |
| Access | |
| Website | www |
In bioinformatics, miRBase is a biological database that acts as an archive of microRNA sequences and annotations.[1][2][3][4] As of September 2010 it contained information about 15,172 microRNAs.[1] This number has risen to 38,589 by March 2018.[5] The miRBase registry provides a centralised system for assigning new names to microRNA genes.[6]
miRBase grew from the microRNA registry resource set up by Sam Griffiths-Jones in 2003.[7]
According to Ana Kozomara and Sam Griffiths-Jones miRBase has five aims:[1]
- To provide a consistent naming system for microRNAs
- To provide a central place collecting all known microRNA sequences
- To provide human and computer readable information for each microRNA
- To provide primary evidence for each microRNA
- To aggregate and link to microRNA target information
MiRBase contains miRNAs belonging of various species belonging to Alveolata, Chromalveolata, Metazoa, Mycetozoa, Viridiplantae and Viruses. For the Viridiplantae, in release 21 (2014) data is available for 73 species. This includes 4800 unique mature miRNAs and 8480 precursor sequences.[8]
The current version of MiRBase is release 22 (March 2018).
References
[edit]- ^ a b c d Kozomara, A.; Griffiths-Jones, S. (2010). "MiRBase: integrating microRNA annotation and deep-sequencing data". Nucleic Acids Research. 39 (Database issue): D152–7. doi:10.1093/nar/gkq1027. PMC 3013655. PMID 21037258.
- ^ Griffiths-Jones, Sam (2010). "MiRBase: microRNA Sequences and Annotation". Current Protocols in Bioinformatics. Vol. Chapter 12. pp. Unit 12.9.1–10. doi:10.1002/0471250953.bi1209s29. ISBN 978-0471250951. PMID 20205188. S2CID 19303675.
- ^ Griffiths-Jones, S.; Saini, H. K.; Van Dongen, S.; Enright, A. J. (2007). "MiRBase: tools for microRNA genomics". Nucleic Acids Research. 36 (Database issue): D154–8. doi:10.1093/nar/gkm952. PMC 2238936. PMID 17991681.
- ^ Griffiths-Jones, Sam (2006). "MiRBase: the MicroRNA Sequence Database". MicroRNA Protocols. Methods in Molecular Biology. Vol. 342. pp. 129–38. doi:10.1385/1-59745-123-1:129. ISBN 1-59745-123-1. PMID 16957372.
- ^ "Mirbase 22 Release Notes".
- ^ Griffiths-Jones, S.; Grocock, RJ; Van Dongen, S; Bateman, A; Enright, AJ (2006). "MiRBase: microRNA sequences, targets and gene nomenclature". Nucleic Acids Research. 34 (Database issue): D140–4. doi:10.1093/nar/gkj112. PMC 1347474. PMID 16381832.
- ^ Griffiths-Jones S (January 2004). "The microRNA Registry". Nucleic Acids Res. 32 (Database issue): D109–11. doi:10.1093/nar/gkh023. PMC 308757. PMID 14681370.
- ^ Nithin, Chandran; Thomas, Amal; Basak, Jolly; Bahadur, Ranjit Prasad (2017-11-15). "Genome-wide identification of miRNAs and lncRNAs in Cajanus cajan". BMC Genomics. 18 (1): 878. doi:10.1186/s12864-017-4232-2. ISSN 1471-2164. PMC 5688659. PMID 29141604.
External links
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