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smyRNA specifications


Unique identifier OMICS_23837
Name smyRNA
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.2
Stability No
Maintained No




No version available


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Publication for smyRNA

smyRNA citations


Identification of non coding RNAs with a new composite feature in the Hybrid Random Forest Ensemble algorithm

Nucleic Acids Res
PMCID: 4066759
PMID: 24771344
DOI: 10.1093/nar/gku325

[…] tability. However, this concept cannot be applied to all ncRNA families (,). Some features, such as nucleotide composition (k-mer), have been used with some success for ncRNA gene prediction (e.g. in smyRNA and ncRNAscout). A statistically significant signal based on CG content can be applied restrictively in AT-rich hyper-thermophiles (). However, these sequence features are limited to compact ba […]


Computational Small RNA Prediction in Bacteria

Bioinform Biol Insights
PMCID: 3596055
PMID: 23516022
DOI: 10.4137/BBI.S11213

[…] e sRNApredict, sRNAscanner, and sRNAfinder, which uses either genomic DNA sequence for signal prediction, or pre-computed signal coordinates from other databases. Generic methods such as nocoRNAc and smyRNA make use of antisense RNA transcript expression-profiling and ab initio structural sequence motif-based discovery, respectively., Such collective efforts have lead to an explosion in the number […]


Searching for Non coding RNAs in Genomic Sequences Using ncRNAscout

PMCID: 5054157
PMID: 22768985
DOI: 10.1016/j.gpb.2012.05.004

[…] For the bacterial genomes analyzed in this work, ncRNAscout was able to discover significantly more known ncRNAs that surpass the MCC threshold of 0.5, compared to smyRNA (). This suggests that ncRNAscout is more accurate in its detections. On average, ncRNAscout detects approximately 88.21% of all the known ncRNAs in the four genomes in with a standard deviati […]


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smyRNA institution(s)
School of Computing Science, Simon Fraser University, Burnaby, BC, Canada; School of Computer Science, University of Waterloo, Waterloo, ON, Canada; Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada
smyRNA funding source(s)
Supported by NSERC, CRC Program, CFI, MITACS, and MSFHR.

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