miRBase: The MicroRNA Sequence Database
Abstract
The miRBase Sequence database is the primary repository for published microRNA (miRNA) sequence and annotation data. miRBase provides a user-friendly web interface for miRNA data, allowing the user to search using key words or sequences, trace links to the primary literature referencing the miRNA discoveries, analyze genomic coordinates and context, and mine relationships between miRNA sequences. miRBase also provides a confidential gene-naming service, assigning official miRNA names to novel genes before their publication. The methods outlined in this chapter describe these functions. miRBase is freely available to all at http://microrna.sanger.ac.uk/.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
miRGeneDB has clearly established itself as the resource for bona fide miRNAs, while miRBase still includes scores of dubiously identified miRNAs.
“miRGeneDB has clearly established itself as the resource for bona fide miRNAs, while miRBase still includes scores of dubiously identified miRNAs [6, 14, 16, 31, 32].”
From A curated human cellular microRNAome based on 196 primary cell types (2022) · cites this paper as [31]
Cites
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
Altschul, S. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.17.3389 · Cited by 73,302 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
The Diploid Genome Sequence of an Individual Human
Levy, S., Sutton, G., Ng, P. C., Feuk, L., Halpern, A. L., Walenz, B. P., Axelrod, N., Huang, J., Kirkness, E. F., Denisov, G., et al. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050254 · Cited by 1,778 · see citing works
Forman, J. J., Legesse-Miller, A., & Coller, H. A. (2008) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0803230105 · Cited by 581 · see citing works
Kapsimali, M., Kloosterman, W. P., de Bruijn, E., Rosa, F., Plasterk, R. H., & Wilson, S. W. (2007) · Genome Biology · doi:10.1186/gb-2007-8-8-r173 · Cited by 376 · see citing works
β-catenin mediates stress resilience through Dicer1/microRNA regulation
Dias, C., Feng, J., Sun, H., Shao, N. Y., Mazei-Robison, M. S., Damez-Werno, D., Scobie, K., Bagot, R., LaBonté, B., Ribeiro, E., et al. (2014) · Nature · doi:10.1038/nature13976 · Cited by 240 · see citing works
General Principals of miRNA Biogenesis and Regulation in the Brain
O'Carroll, D., & Schaefer, A. (2013) · Neuropsychopharmacology · doi:10.1038/npp.2012.87 · Cited by 205 · see citing works
The neurobiological basis of human aggression: A review on genetic and epigenetic mechanisms
Waltes, R., Chiocchetti, A. G., & Freitag, C. M. (2016) · American Journal of Medical Genetics Part B: Neuropsychiatric Genetics · doi:10.1002/ajmg.b.32388 · Cited by 182 · see citing works
A curated human cellular microRNAome based on 196 primary cell types
Patil, A. H., Baran, A., Brehm, Z. P., McCall, M. N., & Halushka, M. K. (2022) · GigaScience · doi:10.1093/gigascience/giac083 · Cited by 30 · see citing works
Molotski, N., & Soen, Y. (2012) · RNA · doi:10.1261/rna.033142.112 · Cited by 26 · see citing works
- Authors
- Griffiths-Jones, S.
- Venue
- MicroRNA Protocols
- Publisher
- Humana Press
- Published
- 2006
- Pages
- 129-138
- Cited by
- 121
- References
- 1
- Language
- en
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
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