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The Impact of Population Variation in the Analysis of microRNA Target Sites

Helmy, Mohab and Hatlen, Andrea and Marco, Antonio (2019) 'The Impact of Population Variation in the Analysis of microRNA Target Sites.' Non-Coding RNA, 5 (2). ISSN 2311-553X

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Abstract

The impact of population variation in the analysis of regulatory interactions is an underdeveloped area. MicroRNA target recognition occurs via pairwise complementarity. Consequently, a number of computational prediction tools have been developed to identify potential target sites that can be further validated experimentally. However, as microRNA target predictions are done mostly considering a reference genome sequence, target sites showing variation among populations are neglected. Here, we studied the variation at microRNA target sites in human populations and quantified their impact in microRNA target prediction. We found that African populations carry a significant number of potential microRNA target sites that are not detectable in the current human reference genome sequence. Some of these targets are conserved in primates and only lost in Out-of-Africa populations. Indeed, we identified experimentally validated microRNA/transcript interactions that are not detected in standard microRNA target prediction programs, yet they have segregating target alleles abundant in non-European populations. In conclusion, we show that ignoring population diversity may leave out regulatory elements essential to understand disease and gene expression, particularly neglecting populations of African origin.

Item Type: Article
Uncontrolled Keywords: miRNAs; human populations; gene regulation; microRNA target prediction; evolution
Divisions: Faculty of Science and Health > Life Sciences, School of
Depositing User: Elements
Date Deposited: 08 Aug 2019 10:09
Last Modified: 08 Aug 2019 10:09
URI: http://repository.essex.ac.uk/id/eprint/25120

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