TY - JOUR
TI - DIANA-mirExTra v2.0: Uncovering microRNAs and transcription factors with
crucial roles in NGS expression data
AU - Vlachos, Ioannis S.
AU - Vergoulis, Thanasis
AU - Paraskevopoulou, Maria
AU - D.
AU - Lykokanellos, Filopoimin
AU - Georgakilas, Georgios
AU - Georgiou,
AU - Penny
AU - Chatzopoulos, Serafeim
AU - Karagkouni, Dimitra and
AU - Christodoulou, Foteini
AU - Dalamagas, Theodore
AU - Hatzigeorgiou,
AU - Artemis G.
JO - Nucleic Acids Research
PY - 2016
VL - 44
TODO - W1
SP - W128-W134
PB - Oxford University Press
SN - 0305-1048, 1362-4962
TODO - 10.1093/nar/gkw455
TODO - null
TODO - Differential expression analysis (DEA) is one of the main instruments
utilized for revealing molecular mechanisms in pathological and
physiological conditions. DIANA-mirExTra v2.0
(http://www.microrna.gr/mirextrav2) performs a combined DEA of mRNAs and
microRNAs (miRNAs) to uncover miRNAs and transcription factors (TFs)
playing important regulatory roles between two investigated states. The
web server uses as input miRNA/RNA-Seq read count data sets that can be
uploaded for analysis. Users can combine their data with 350
small-RNA-Seq and 65 RNA-Seq in-house analyzed libraries which are
provided by DIANA-mirExTra v2.0.
The web server utilizes miRNA:mRNA, TF:mRNA and TF:miRNA interactions
derived from extensive experimental data sets. More than 450 000 miRNA
interactions and 2 000 000 TF binding sites from specific or
high-throughput techniques have been incorporated, while accurate miRNA
TSS annotation is obtained from microTSS experimental/in silico
framework. These comprehensive data sets enable users to perform
analyses based solely on experimentally supported information and to
uncover central regulators within sequencing data: miRNAs controlling
mRNAs and TFs regulating mRNA or miRNA expression. The server also
supports predicted miRNA:gene interactions from DIANA-microT-CDS for 4
species (human, mouse, nematode and fruit fly). DIANA-mirExTra v2.0 has
an intuitive user interface and is freely available to all users without
any login requirement.
ER -