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Find-miRNA specifications


Unique identifier OMICS_20210
Name Find-miRNA
Interface Command line interface
Restrictions to use Academic or non-commercial use
Input data A genomic sequence and three-letter organism ID.
Output data A putative pre-miRNAs and miRNAs.
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Stability No
Maintained Yes




No version available


Additional information

Find-miRNA citations


Fishing Into the MicroRNA Transcriptome

Front Genet
PMCID: 5868305
PMID: 29616080
DOI: 10.3389/fgene.2018.00088

[…] ningo encephalitis caused by Streptococcus agalactiae in Nile tilapia. Although these data are important, the studies of Wang et al. () and Wang B. et al. () are deficient because of their failure to find miRNA biomarkers that are more effective or that can be manipulated. […]


In Silico Analysis of Small RNAs Suggest Roles for Novel and Conserved miRNAs in the Formation of Epigenetic Memory in Somatic Embryos of Norway Spruce

Front Physiol
PMCID: 5596105
PMID: 28943851
DOI: 10.3389/fphys.2017.00674

[…] RNAs targeting epigenetic regulators predicted here were novel, so their possible existence also in other plant species should be pursued to verify their general importance. However, the fact that we find miRNA directly targeting all types of epigenetic modifiers indicated that miRNAs are central players involved in formation of epigenetic memory or at least in regulating the expression of the epi […]


MicroRNA Profiling in Cartilage Ageing

Int J Genomics
PMCID: 5584353
PMID: 28890892
DOI: 10.1155/2017/2713725

[…] nt the most likely dysregulated miRNAs principally due to age. These were miR-486-5p, -210, -4521, let-7a-1, -423-5p, -6795-5p, -6774-5p, -7111-5p, -6824-5p, and -6875-5p. Next, we used TargetScan to find miRNA putative target genes. Gene ontology was then undertaken on these genes in an effort to explore the position of the DE miRNAs in the chondrocyte expression network and cartilage ageing. In […]


Human snoRNA 93 is processed into a microRNA like RNA that promotes breast cancer cell invasion

PMCID: 5503938
PMID: 28702505
DOI: 10.1038/s41523-017-0032-8

[…] breast cancer models did result in the successful identification of 13 snoRNAs expressed at markedly higher levels (≥7.5x) in MDA-MB-231s as compared to MCF-7s (Supplementary Table ). Furthermore, we find miRNA-like fragments derived from all 13 of these snoRNAs in MDA-MB-231s, and that 10 of the 13 are found in complex with the miRNA-associating protein Ago in available SRA datasets (data not sho […]


A Lin28 homologue reprograms differentiated cells to stem cells in the moss Physcomitrella patens

Nat Commun
PMCID: 5290140
PMID: 28128346
DOI: 10.1038/ncomms14242

[…] n28 transcripts. Therefore, this negative feedback loop functions as a bistable switch to regulate cell fate. We found that regulation of PpCSP1 transcripts is mediated by its 3′-UTR but we could not find miRNA binding sites in this region nor let-7 homologues in the Physcomitrella genome. Furthermore, the degradation of PpCSP1 transcripts is not specific to the differentiated cells (). The activa […]


miRNAs Do Not Regulate Circadian Protein Synthesis in the Dinoflagellate Lingulodinium polyedrum

PLoS One
PMCID: 5245829
PMID: 28103286
DOI: 10.1371/journal.pone.0168817

[…] re selectively amplified during preparation of the library for sequencing.If miRNA were to be used as a general mechanism to mediate clock control over protein synthesis, then we might also expect to find miRNA sequences corresponding to the mRNA encoding circadian-regulated proteins. We thus assembled the 4.9 M reads to all known transcripts whose translation is under circadian control. With LBP […]


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