Editorial: Computational miRNomics

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doi doi:10.2390/biecoll-jib-2016-302
submission December 22, 2016
published December 22, 2016

Jens Allmer and Malik Yousef

Correspondence should be addressed to:
Jens Allmer
Bioinformatics, Molecular Biology and Genetics, Izmir Institute of Technology, Urla, Izmir, Turkey


The term MicroRNA or its contraction miRNA currently appears in 21,215 titles of abstracts, published between 1997 and now, available on Pubmed (2016-21-22:12:59 EET). 4,108 of these were published in 2016 alone which signifies the importance of miRNA-related research. MicroRNAs can be detected experimentally using various techniques like directional cloning of endogenous small RNAs but they are time consuming. Additionally, it is necessary for the miRNA and its mRNA target(s) to be co-expressed to infer a functional relationship which is difficult, if not impossible, to achieve. Since experimental approaches are facing such difficulties, they have been complemented by computational approaches thereby defining the field of computational miRNomics. Due to the rapid development in the discipline, it is important to assess the state-of-the-art. In this special issue, several areas of the field are investigated ranging from pre-miRNA detection via machine learning to application of differential expression analysis in plants. First, Sašar Demirci et al. discuss an approach to virus pre-miRNA detection using machine learning. Such approaches are based on parameterization of miRNAs and Yousef et al. discuss how to select among such features. A different computational perspective is provided by Kotipalli et al. who model the kinetics of miRNA genesis and targeting. To fuel more refined future models for genesis and targeting, it is important to establish miRNA and target expression under varying conditions. Zhang et al. and Kanke et al. discuss two approaches to quantify miRNAs and other non-coding short RNAs. Diler et al., finally, discuss actual biological implications of differentially expressed miRNAs. This special issue on computational miRNomics, thus, provides a trajectory from detection of pre-miRNAs to biological implications of differentially expressed miRNAs. Additional topics will be covered in the upcoming second volume of the special issue on computational miRNomics.


Jens Allmer and Malik Yousef. Editorial: Computational miRNomics. Journal of Integrative Bioinformatics, 13(5):302, 2016. Online Journal: http://journal.imbio.de/index.php?paper_id=302
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