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Nucleic Acids Research 2006 34(Database Issue):D140-D144; doi:10.1093/nar/gkj112
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Nucleic Acids Research, 2006, Vol. 34, Database issue D140-D144
© The Author 2006. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oxfordjournals.org

Article

miRBase: microRNA sequences, targets and gene nomenclature

Sam Griffiths-Jones*, Russell J. Grocock, Stijn van Dongen, Alex Bateman and Anton J. Enright

The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus Hinxton, Cambridge CB10 1SA, UK

*To whom correspondence should be addressed. Tel: +44 1223 834244; Fax: +44 1223 494919; Email: sgj{at}sanger.ac.uk

Received September 12, 2005. Revised October 18, 2005. Accepted October 18, 2005.

The miRBase database aims to provide integrated interfaces to comprehensive microRNA sequence data, annotation and predicted gene targets. miRBase takes over functionality from the microRNA Registry and fulfils three main roles: the miRBase Registry acts as an independent arbiter of microRNA gene nomenclature, assigning names prior to publication of novel miRNA sequences. miRBase Sequences is the primary online repository for miRNA sequence data and annotation. miRBase Targets is a comprehensive new database of predicted miRNA target genes. miRBase is available at http://microrna.sanger.ac.uk/.


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S. Barik
An intronic microRNA silences genes that are functionally antagonistic to its host gene
Nucleic Acids Res., September 1, 2008; 36(16): 5232 - 5241.
[Abstract] [Full Text] [PDF]

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 Nucleic Acids ResHome page
Q. Liu, H. Fu, F. Sun, H. Zhang, Y. Tie, J. Zhu, R. Xing, Z. Sun, and X. Zheng
miR-16 family induces cell cycle arrest by regulating multiple cell cycle genes
Nucleic Acids Res., September 1, 2008; 36(16): 5391 - 5404.
[Abstract] [Full Text] [PDF]

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 Genome ResHome page
M. E. Dinger, P. P. Amaral, T. R. Mercer, K. C. Pang, S. J. Bruce, B. B. Gardiner, M. E. Askarian-Amiri, K. Ru, G. Solda, C. Simons, et al.
Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation
Genome Res., September 1, 2008; 18(9): 1433 - 1445.
[Abstract] [Full Text] [PDF]

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 J. Biol. Chem.Home page
S.-J. Hu, G. Ren, J.-L. Liu, Z.-A. Zhao, Y.-S. Yu, R.-W. Su, X.-H. Ma, H. Ni, W. Lei, and Z.-M. Yang
MicroRNA Expression and Regulation in Mouse Uterus during Embryo Implantation
J. Biol. Chem., August 22, 2008; 283(34): 23473 - 23484.
[Abstract] [Full Text] [PDF]

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 Nucleic Acids ResHome page
J. Chen, J. Lozach, E. W. Garcia, B. Barnes, S. Luo, I. Mikoulitch, L. Zhou, G. Schroth, and J.-B. Fan
Highly sensitive and specific microRNA expression profiling using BeadArray technology
Nucleic Acids Res., August 1, 2008; 36(14): e87 - e87.
[Abstract] [Full Text] [PDF]

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 RNAHome page
D. Didiano and O. Hobert
Molecular architecture of a miRNA-regulated 3' UTR
RNA, July 1, 2008; 14(7): 1297 - 1317.
[Abstract] [Full Text] [PDF]

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 CarcinogenesisHome page
K. Chen, F. Song, G. A. Calin, Q. Wei, X. Hao, and W. Zhang
Polymorphisms in microRNA targets: a gold mine for molecular epidemiology
Carcinogenesis, July 1, 2008; 29(7): 1306 - 1311.
[Abstract] [Full Text] [PDF]

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 BioinformaticsHome page
Y. Xu, X. Zhou, and W. Zhang
MicroRNA prediction with a novel ranking algorithm based on random walks
Bioinformatics, July 1, 2008; 24(13): i50 - i58.
[Abstract] [Full Text] [PDF]

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 Nucleic Acids ResHome page
Y.-H. Chen, C.-K. Liu, S.-C. Chang, Y.-J. Lin, M.-F. Tsai, Y.-T. Chen, and A. Yao
GenoWatch: a disease gene mining browser for association study
Nucleic Acids Res., July 1, 2008; 36(suppl_2): W336 - W340.
[Abstract] [Full Text] [PDF]

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 Nucleic Acids ResHome page
J. Reimand, L. Tooming, H. Peterson, P. Adler, and J. Vilo
GraphWeb: mining heterogeneous biological networks for gene modules with functional significance
Nucleic Acids Res., July 1, 2008; 36(suppl_2): W452 - W459.
[Abstract] [Full Text] [PDF]

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 Nucleic Acids ResHome page
F. Al-Shahrour, J. Carbonell, P. Minguez, S. Goetz, A. Conesa, J. Tarraga, I. Medina, E. Alloza, D. Montaner, and J. Dopazo
Babelomics: advanced functional profiling of transcriptomics, proteomics and genomics experiments
Nucleic Acids Res., July 1, 2008; 36(suppl_2): W341 - W346.
[Abstract] [Full Text] [PDF]

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 Mol Biol EvolHome page
R. Zhang, Y.-Q. Wang, and B. Su
Molecular Evolution of a Primate-Specific microRNA Family
Mol. Biol. Evol., July 1, 2008; 25(7): 1493 - 1502.
[Abstract] [Full Text] [PDF]

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 RNAHome page
X. Wang
miRDB: A microRNA target prediction and functional annotation database with a wiki interface
RNA, June 1, 2008; 14(6): 1012 - 1017.
[Abstract] [Full Text] [PDF]

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 Genome ResHome page
E. A. Glazov, P. A. Cottee, W. C. Barris, R. J. Moore, B. P. Dalrymple, and M. L. Tizard
A microRNA catalog of the developing chicken embryo identified by a deep sequencing approach
Genome Res., June 1, 2008; 18(6): 957 - 964.
[Abstract] [Full Text] [PDF]

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 BioinformaticsHome page
M. Hackenberg and R. Matthiesen
Annotation-Modules: a tool for finding significant combinations of multisource annotations for gene lists
Bioinformatics, June 1, 2008; 24(11): 1386 - 1393.
[Abstract] [Full Text] [PDF]


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