Current tools for the identification of miRNA genes and their targets

ND Mendes, AT Freitas, MF Sagot - Nucleic acids research, 2009 - academic.oup.com
The discovery of microRNAs (miRNAs), almost 10 years ago, changed dramatically our
perspective on eukaryotic gene expression regulation. However, the broad and important …

A novel tumor-promoting mechanism of IL6 and the therapeutic efficacy of tocilizumab: Hypoxia-induced IL6 is a potent autophagy initiator in glioblastoma via the p …

H Xue, G Yuan, X Guo, Q Liu, J Zhang, X Gao, X Guo… - Autophagy, 2016 - Taylor & Francis
Hypoxia induces protective autophagy in glioblastoma cells and new therapeutic avenues
that target this process may improve the outcome for glioblastoma patients. Recent studies …

Small RNAs analysis in CLL reveals a deregulation of miRNA expression and novel miRNA candidates of putative relevance in CLL pathogenesis

S Marton, MR Garcia, C Robello, H Persson… - Leukemia, 2008 - nature.com
MicroRNAs (miRNAs) are a novel class of small noncoding RNA molecules that regulate
gene expression by inducing degradation or translational inhibition of target mRNAs. There …

De novo prediction of structured RNAs from genomic sequences

J Gorodkin, IL Hofacker, E Torarinsson, Z Yao… - Trends in …, 2010 - cell.com
Growing recognition of the numerous, diverse and important roles played by non-coding
RNA in all organisms motivates better elucidation of these cellular components …

Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes

A Stark, P Kheradpour, L Parts, J Brennecke… - Genome …, 2007 - genome.cshlp.org
MicroRNAs (miRNAs) are short regulatory RNAs that inhibit target genes by complementary
binding in 3′ untranslated regions (3′ UTRs). They are one of the most abundant classes …

GraphClust: alignment-free structural clustering of local RNA secondary structures

S Heyne, F Costa, D Rose, R Backofen - Bioinformatics, 2012 - academic.oup.com
Motivation: Clustering according to sequence–structure similarity has now become a
generally accepted scheme for ncRNA annotation. Its application to complete genomic …

RNA Editing in Trypanosoma brucei Requires Three Different Editosomes

J Carnes, JR Trotter, A Peltan, M Fleck… - Molecular and cellular …, 2008 - Taylor & Francis
Trypanosoma brucei has three distinct∼ 20S editosomes that catalyze RNA editing by the
insertion and deletion of uridylates. Editosomes with the KREN1 or KREN2 RNase III type …

Heterogeneous ensemble approach with discriminative features and modified-SMOTEbagging for pre-miRNA classification

S Lertampaiporn, C Thammarongtham… - Nucleic acids …, 2013 - academic.oup.com
An ensemble classifier approach for microRNA precursor (pre-miRNA) classification was
proposed based upon combining a set of heterogeneous algorithms including support …

The liverwort Pellia endiviifolia shares microtranscriptomic traits that are common to green algae and land plants

S Alaba, P Piszczalka, H Pietrykowska… - New …, 2015 - Wiley Online Library
Liverworts are the most basal group of extant land plants. Nonetheless, the molecular
biology of liverworts is poorly understood. Gene expression has been studied in only one …

Computational and experimental identification of mirtrons in Drosophila melanogaster and Caenorhabditis elegans

WJ Chung, P Agius, JO Westholm, M Chen… - Genome …, 2011 - genome.cshlp.org
Mirtrons are intronic hairpin substrates of the dicing machinery that generate functional
microRNAs. In this study, we describe experimental assays that defined the essential …