Correction: Transcriptome-Wide Prediction of miRNA Targets in Human and Mouse Using FASTH

• DOI: 10.1371/annotation/e0842765-3cae-4737-8b5b-96aeb12d7fb5
• Publication Date: 2014-03-12T12:56:50Z
• Authors: Chikako Ragan; Nicole Cloonan; Sean M. Grimmond; Michael Zuker; Mark A. Ragan
• Keywords: 0301 basic medicine; 03 medical and health sciences; Science; Q; R; Medicine; Correction

Transcriptional regulation by microRNAs (miRNAs) involves complementary base-pairing at target sites on mRNAs, yielding complex secondary structures.Here we introduce an efficient computational approach and software (FASTH) for genomescale prediction of miRNA based minimizing the free energy duplex structure.We apply our to identify in human mouse transcriptomes.Our results show that short sequence motifs 59 end miRNAs frequently match mRNAs perfectly, not only validated but additionally many other, energetically favourable sites.High-quality matching regions are abundant occur similar frequencies all mRNA regions, 39UTR.About one-third potential reassigned different or gained lost altogether, among transcript isoforms from same gene.Many predicted found mouse, vice-versa, those do orthologous most situated corresponding i.e. these themselves orthologous.Using a luciferase assay HEK293 cells, validate four six miRNA-mRNA interactions, with level reduced average 73%.We demonstrate thermodynamically binding can be scaled analyse complete mammalian transcriptome datasets.These confirm extend scope miRNAmediated species-and transcript-specific cell types, tissues developmental conditions.