Identifying miRNAs, targets and functions

B Liu, J Li, MJ Cairns - Briefings in bioinformatics, 2014 - academic.oup.com
Abstract microRNAs (miRNAs) are small endogenous non-coding RNAs that function as the
universal specificity factors in post-transcriptional gene silencing. Discovering miRNAs …

Non-coding RNAs and their roles in stress response in plants

J Wang, X Meng, OB Dobrovolskaya… - Genomics …, 2017 - academic.oup.com
Eukaryotic genomes encode thousands of non-coding RNAs (ncRNAs), which play crucial
roles in transcriptional and post-transcriptional regulation of gene expression. Accumulating …

miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades

MR Friedländer, SD Mackowiak, N Li… - Nucleic acids …, 2012 - academic.oup.com
Abstract microRNAs (miRNAs) are a large class of small non-coding RNAs which post-
transcriptionally regulate the expression of a large fraction of all animal genes and are …

miRDeepFinder: a miRNA analysis tool for deep sequencing of plant small RNAs

F **e, P **ao, D Chen, L Xu, B Zhang - Plant molecular biology, 2012 - Springer
Abstract miRDeepFinder is a software package developed to identify and functionally
analyze plant microRNAs (miRNAs) and their targets from small RNA datasets obtained from …

Deep RNA sequencing reveals dynamic regulation of myocardial noncoding RNAs in failing human heart and remodeling with mechanical circulatory support

KC Yang, KA Yamada, AY Patel, VK Topkara… - Circulation, 2014 - ahajournals.org
Background—Microarrays have been used extensively to profile transcriptome remodeling
in failing human heart, although the genomic coverage provided is limited and fails to …

miREvo: an integrative microRNA evolutionary analysis platform for next-generation sequencing experiments

M Wen, Y Shen, S Shi, T Tang - BMC bioinformatics, 2012 - Springer
Background MicroRNAs (miRNAs) are small (~ 19-24nt) non-coding RNAs that play
important roles in various biological processes. To date, the next-generation sequencing …

Evidence for natural antisense transcript-mediated inhibition of microRNA function

MA Faghihi, M Zhang, J Huang, F Modarresi… - Genome biology, 2010 - Springer
Background MicroRNAs (miRNAs) have the potential to regulate diverse sets of mRNA
targets. In addition, mammalian genomes contain numerous natural antisense transcripts …

Bioinformatic tools for microRNA dissection

MM Akhtar, L Micolucci, MS Islam, F Olivieri… - Nucleic acids …, 2016 - academic.oup.com
Recently, microRNAs (miRNAs) have emerged as important elements of gene regulatory
networks. MiRNAs are endogenous single-stranded non-coding RNAs (∼ 22-nt long) that …

Diverse human extracellular RNAs are widely detected in human plasma

JE Freedman, M Gerstein, E Mick, J Rozowsky… - Nature …, 2016 - nature.com
There is growing appreciation for the importance of non-protein-coding genes in
development and disease. Although much is known about microRNAs, limitations in …

Platelets activated during myocardial infarction release functional miRNA, which can be taken up by endothelial cells and regulate ICAM1 expression

O Gidlöf, M van der Brug, J Öhman… - Blood, The Journal …, 2013 - ashpublications.org
Platelets play a crucial role in the pathogenesis of myocardial infarction (MI) by adhering to
the site of a ruptured atherosclerotic plaque. The aim of this study was to screen for …