RNA22 protocols

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RNA22 specifications

Information


Unique identifier OMICS_04094
Name RNA22
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/RNA22

Taxon


  • Invertebrates
    • Caenorhabditis elegans
    • Drosophila melanogaster
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus

Maintainer


  • person_outline Isidore Rigoutsos <>

Publication for RNA22

RNA22 in pipeline

2018
PMCID: 5858504
PMID: 29556360
DOI: 10.7150/thno.22167

[…] targets of mir-590-3p. furthermore, we searched for their "seed sequence" on ccnb1 and cdk1 mrna using mirtarbase, as shown in figure a . we confirmed this analysis also using microrna.org and rna22 packages ., aligned sam files were kindly provided by the authors of . we converted all of them back to fastq with picard to use our custom analysis pipeline from scratch. three replicates […]


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RNA22 in publications

 (528)
PMCID: 5939684
DOI: 10.1167/iovs.18-24091

[…] http://zmf.umm.uni-heidelberg.de/apps/zmf/mirwalk2/), which is able to predict targets for mirnas using the algorithms of several databases including mirwalk 2.0 itself, miranda,, targetscan, and rna22, among others. using cytoscape v3.0.0 open access software, we constructed mirna–mrna interaction networks with both de mirnas and their target mrnas as predicted by mirwalk 2.0. only genes […]

PMCID: 5942171
PMID: 29765228
DOI: 10.2147/OTT.S156608

[…] was quantified by counting five independent visual fields under a light microscope (olympus corporation; 200×)., four established bioinformatic prediction tools (mirdb, miranda, targetscan, and rna2222) were used to predict potential mir-613 targets. human sox9 3′-utrs, containing either the putative mir-613 binding site or a mutant site, were synthesized by genepharma and inserted […]

PMCID: 5923027
PMID: 29703210
DOI: 10.1186/s12943-018-0835-8

[…] two conserved mirnas processed from its first exon, mir-676-5p and mir-675-3p []. using several in silico bioinformatics web-based analysis including targetscan (url:http://www.targetscan.org), rna22 (url: https://cm.jefferson.edu/rna22), and miranda (url:https://omictools.com/miranda-tool), we found that htert mrna was predicted as a potential, target of mir-675-5p, although poorly […]

PMCID: 5928201
PMID: 29740341
DOI: 10.3389/fphys.2018.00429

[…] validated) targeted by these 12 mirnas were identified using human mirna ids in the mirwalk webtool (dweep and gretz, ). only genes included in the seven available databases (mirwalk, pita, microt4, rna22, miranda, rnahybrid and targetscan) were retained in the analysis. for mirnas without gene targets, we used a validated list of genes downloaded from the latest database update (diana tarbase […]

PMCID: 5895658
PMID: 29674956
DOI: 10.3389/fncel.2018.00091

[…] (1) target mrnas of mir-103 were first predicted by mirwalk 2.0 with six or above positive results by 12 methods (mirwalk, microt4, miranda, mirbridge, mirdb, mirmap, mirnamap, pictar2, pita, rna22, rnahybrid, targetscan, dweep et al., ); (2) genes correlated with ad pathology or risk were analyzed by disgenet, piñero et al., ); and (3) potential targeted genes (ptgs2, adam10 and nep) […]


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RNA22 institution(s)
Computational Medicine Center, Thomas Jefferson University, Philadelphia, PA, USA
RNA22 funding source(s)
Supported by a William M. Keck Foundation grant award and Thomas Jefferson University.

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