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MirPlex specifications

Information


Unique identifier OMICS_11465
Name MirPlex
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Windows
Programming languages Java
Computer skills Advanced
Version 0.1
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Dr. Daniel Mapleson

Publication for MirPlex

MirPlex citations

 (3)
library_books

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

2017
PLoS One
PMCID: 5245829
PMID: 28103286
DOI: 10.1371/journal.pone.0168817

[…] bases and contained only reads in the same direction. these 948 assemblies indicated the small rnas contributing to them did not have the defined ends expected for bone fide mirnas, so as with the mirplex pipeline [], they were also removed leaving a final dataset of 94,239 potential mirna candidates. to test if any of the 94,239 sequences could form rna duplexes with 2 base 3’ overhangs, […]

library_books

Computational Prediction of miRNA Genes from Small RNA Sequencing Data

2015
Front Bioeng Biotechnol
PMCID: 4306309
PMID: 25674563
DOI: 10.3389/fbioe.2015.00007

[…] overall, the most abundant and conserved mirnas were identified in this study, but the approach might be less successful for species that do not have closely related species with genome sequences., mirplex is a tool that requires only srna datasets as input with no genome sequences needed (mapleson et al., ). it uses a multi-stage process to identify genuine mirna duplexes. first, […]

library_books

Prediction of Mature MicroRNA and Piwi Interacting RNA without a Genome Reference or Precursors

2015
Int J Mol Sci
PMCID: 4307313
PMID: 25580537
DOI: 10.3390/ijms16011466

[…] based on the analysis of a hold-out test set. using experimental data, we also show that our approach can detect about an order of magnitude or more known mirnas than the mature mirna predictor, mirplex., non-coding rnas (ncrnas) are functional rna transcripts that do not translate into proteins. the small ncrna class consists of ncrnas of lengths of about 20 to 30 nucleotides (nt). two […]


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MirPlex institution(s)
University of East Anglia, Norwich, UK

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