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In [[bioinformatics]], '''miRBase''' is a [[biological database]] that acts as an archive of [[microRNA]] [[Sequence (biology)|sequences]] and annotations.<ref name="pmid21037258">{{cite journal |last1=Kozomara |first1=A. |last2=Griffiths-Jones |first2=S. |title=MiRBase: integrating microRNA annotation and deep-sequencing data |journal=Nucleic Acids Research |volume=39 |issue=Database issue |pages=D152–7 |year=2010 |pmid=21037258 |pmc=3013655 |doi=10.1093/nar/gkq1027}}</ref><ref name="pmid20205188">{{cite journal |last1=Griffiths-Jones |first1=Sam |title=MiRBase: microRNA Sequences and Annotation |pages=Unit 12.9.1–10 |year=2010 |doi=10.1002/0471250953.bi1209s29}}</ref><ref name="pmid17991681">{{cite journal |last1=Griffiths-Jones |first1=S. |last2=Saini |first2=H. K. |last3=Van Dongen |first3=S. |last4=Enright |first4=A. J. |title=MiRBase: tools for microRNA genomics |journal=Nucleic Acids Research |volume=36 |issue=Database issue |pages=D154–8 |year=2007 |pmid=17991681 |pmc=2238936 |doi=10.1093/nar/gkm952}}</ref><ref name="pmid16957372">{{cite journal |last1=Griffiths-Jones |first1=Sam |title=MiRBase: the MicroRNA Sequence Database |volume=342 |pages=129–38 |year=2006 |doi=10.1385/1-59745-123-1:129}}</ref> As of September 2010 it contained information about 15,172 microRNAs.<ref name="pmid21037258" /> The miRBase registry provides a centralised system for assigning new names to microRNA genes.<ref name="pmid16381832">{{cite journal |last1=Griffiths-Jones |first1=S. |last2=Grocock |first2=RJ |last3=Van Dongen |first3=S |last4=Bateman |first4=A |last5=Enright |first5=AJ |title=MiRBase: microRNA sequences, targets and gene nomenclature |journal=Nucleic Acids Research |volume=34 |issue=Database issue |pages=D140–4 |year=2006 |pmid=16381832 |pmc=1347474 |doi=10.1093/nar/gkj112}}</ref>
In [[bioinformatics]], '''miRBase''' is a [[biological database]] that acts as an archive of [[microRNA]] [[Sequence (biology)|sequences]] and annotations.<ref name="pmid21037258">{{cite journal |last1=Kozomara |first1=A. |last2=Griffiths-Jones |first2=S. |title=MiRBase: integrating microRNA annotation and deep-sequencing data |journal=Nucleic Acids Research |volume=39 |issue=Database issue |pages=D152–7 |year=2010 |pmid=21037258 |pmc=3013655 |doi=10.1093/nar/gkq1027}}</ref><ref name="pmid20205188">{{cite journal |last1=Griffiths-Jones |first1=Sam |title=MiRBase: microRNA Sequences and Annotation |pages=Unit 12.9.1–10 |year=2010 |doi=10.1002/0471250953.bi1209s29}}</ref><ref name="pmid17991681">{{cite journal |last1=Griffiths-Jones |first1=S. |last2=Saini |first2=H. K. |last3=Van Dongen |first3=S. |last4=Enright |first4=A. J. |title=MiRBase: tools for microRNA genomics |journal=Nucleic Acids Research |volume=36 |issue=Database issue |pages=D154–8 |year=2007 |pmid=17991681 |pmc=2238936 |doi=10.1093/nar/gkm952}}</ref><ref name="pmid16957372">{{cite journal |last1=Griffiths-Jones |first1=Sam |title=MiRBase: the MicroRNA Sequence Database |volume=342 |pages=129–38 |year=2006 |doi=10.1385/1-59745-123-1:129}}</ref> As of September 2010 it contained information about 15,172 microRNAs.<ref name="pmid21037258" /> This number has rose to 38589 by March 2018<ref>{{Cite web|url=ftp://mirbase.org/pub/mirbase/CURRENT/README|title=Mirbase 22 Release Notes|last=|first=|date=|website=|archive-url=|archive-date=|dead-url=|access-date=}}</ref>. The miRBase registry provides a centralised system for assigning new names to microRNA genes.<ref name="pmid16381832">{{cite journal |last1=Griffiths-Jones |first1=S. |last2=Grocock |first2=RJ |last3=Van Dongen |first3=S |last4=Bateman |first4=A |last5=Enright |first5=AJ |title=MiRBase: microRNA sequences, targets and gene nomenclature |journal=Nucleic Acids Research |volume=34 |issue=Database issue |pages=D140–4 |year=2006 |pmid=16381832 |pmc=1347474 |doi=10.1093/nar/gkj112}}</ref>


miRBase grew from the microRNA registry resource set up by Sam Griffiths-Jones in 2003.<ref name="pmid14681370">{{cite journal |author=Griffiths-Jones S |title=The microRNA Registry |journal=Nucleic Acids Res. |volume=32 |issue=Database issue |pages=D109–11 |date=January 2004 |pmid=14681370 |pmc=308757 |doi=10.1093/nar/gkh023 |url=}}</ref>
miRBase grew from the microRNA registry resource set up by Sam Griffiths-Jones in 2003.<ref name="pmid14681370">{{cite journal |author=Griffiths-Jones S |title=The microRNA Registry |journal=Nucleic Acids Res. |volume=32 |issue=Database issue |pages=D109–11 |date=January 2004 |pmid=14681370 |pmc=308757 |doi=10.1093/nar/gkh023 |url=}}</ref>
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# To provide primary evidence for each microRNA
# To provide primary evidence for each microRNA
# To aggregate and link to microRNA target information
# To aggregate and link to microRNA target information
Mirbase contains miRNAs belonging of various species belonging to [[Alveolate|Alveolata]], [[Chromalveolata]], [[Metazoa]], [[Mycetozoa]], [[Viridiplantae]] and [[Virus|Viruses]]. For the [[Viridiplantae]], in release 21 data is available for 73 [[species]]. This includes 4800 unique mature [[MicroRNA|miRNAs]] and 8480 precursor sequences<ref>{{Cite journal|last=Nithin|first=Chandran|last2=Thomas|first2=Amal|last3=Basak|first3=Jolly|last4=Bahadur|first4=Ranjit Prasad|date=2017-11-15|title=Genome-wide identification of miRNAs and lncRNAs in Cajanus cajan|url=https://doi.org/10.1186/s12864-017-4232-2|journal=BMC Genomics|volume=18|pages=878|doi=10.1186/s12864-017-4232-2|issn=1471-2164}}</ref>.


==References==
==References==

Revision as of 22:43, 31 March 2018

miRBase
Content
DescriptionmicroRNA annotation and deep-sequencing data.
Contact
Research centerUniversity of Manchester
LaboratoryFaculty of Life Sciences
AuthorsAna Kozomara
Primary citationKozomara & al. (2011)[1]
Release date2010
Access
Websitehttp://www.mirbase.org/

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 rose to 38589 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 Kozomara and Griffiths-Jones miRBase has five aims:[1]

  1. To provide a consistent naming system for microRNAs
  2. To provide a central place collecting all known microRNA sequences
  3. To provide human and computer readable information for each microRNA
  4. To provide primary evidence for each microRNA
  5. 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 data is available for 73 species. This includes 4800 unique mature miRNAs and 8480 precursor sequences[8].

References

  1. ^ 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.
  2. ^ Griffiths-Jones, Sam (2010). "MiRBase: microRNA Sequences and Annotation": Unit 12.9.1–10. doi:10.1002/0471250953.bi1209s29. {{cite journal}}: Cite journal requires |journal= (help)
  3. ^ 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.
  4. ^ Griffiths-Jones, Sam (2006). "MiRBase: the MicroRNA Sequence Database". 342: 129–38. doi:10.1385/1-59745-123-1:129. {{cite journal}}: Cite journal requires |journal= (help)
  5. ^ "Mirbase 22 Release Notes". {{cite web}}: Cite has empty unknown parameter: |dead-url= (help)
  6. ^ 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.
  7. ^ 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.
  8. ^ 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: 878. doi:10.1186/s12864-017-4232-2. ISSN 1471-2164.{{cite journal}}: CS1 maint: unflagged free DOI (link)

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