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Year : 2015  |  Volume : 52  |  Issue : 1  |  Page : 11-22

Computational approach for elucidating interactions of cross-species miRNAs and their targets in Flaviviruses

1 Functional Genomics and Gene Silencing Group, Centre for Cellular and Molecular Biology, Hyderabad, India
2 Biology Division and Center for Chemical Biology, Indian Institute of Chemical Technology, Tarnaka, Hyderabad, India

Correspondence Address:
Dr. Utpal Bhadra
Functional Genomics and Gene Silencing Group, Centre for Cellular and Molecular Biology, Hyderabad-500 007
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Source of Support: None, Conflict of Interest: None

PMID: 25815862

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Background & objectives: Combating viral diseases has been a challenging task since time immemorial. Available molecular approaches are limited and not much effective for this daunting task. MicroRNA based therapies have shown promise in recent times. MicroRNAs are tiny non-coding RNAs that regulate translational repression of target mRNA in highly specific manner. Methods: In this study, we have determined the target regions for human and viral microRNAs in the conserved genomic regions of selected viruses of Flaviviridae family using miRanda and performed a comparative target selectivity analysis among them. Results: Specific target regions were determined and they were compared extensively among themselves by exploring their position to determine the vicinity. Based on the multiplicity and cooperativity analysis, interaction maps were developed manually to represent the interactions between top-ranking miRNAs and genomes of the viruses considered in this study. Self-organizing map (SOM) was used to cluster the best-ranked microRNAs based on the vital physicochemical properties. Interpretation & conclusion: This study will provide deep insight into the interrelation of the viral and human microRNAs interactions with the selected Flaviviridae genomes and will help to identify cross-species microRNA targets on the viral genome.

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