title: Functional Analysis of miRNAs Using the DIANA Tools Online Suite.
abstract: microRNAs (miRNAs) are central regulators of gene expression. They are actively studied for their involvement in numerous physiological and pathological conditions but also as diagnostic biomarkers or promising therapeutic targets. The increased complexity of the miRNA interactomes hinders straightforward interpretation of miRNA expression differences between states and conditions. To this end, functional analysis web servers process and combine experimental and in silico data, enabling researchers to uncover targeted pathways and transcriptional mechanisms that are hidden within numerous interactions and vast expression datasets. DIANA-tools ( www.microrna.gr ) is a web server hosting state-of-the-art utilities and databases for miRNA functional investigation. Available utilities cover a wide scope of different needs and research scenarios, rendering DIANA website a one-stop-shop for miRNA analyses. The most commonly utilized databases and algorithms include DIANA-microT-CDS, DIANA-TarBase v7.0, DIANA-lncBase v2.0, DIANA-miRGen v3.0, DIANA-miRPath v3.0, and DIANA-mirExTra v2.0.In the presented protocol, we will utilize different online tools in order to explore miRNA functions and to identify probable targets of interest for downstream analyses and wet lab experiments. The combined use of different applications from the DIANA suite can shed light to numerous different aspects of miRNA regulation and regulatory function, without the necessity for extensive bioinformatics expertise or computational infrastructure.
authors.affiliation: Hellenic Pasteur Institute, 127 Vasilissis Sofias Avenue, Athens, 11521, Greece. ivlachos@lessr.eu.
authors.forename: Ioannis S
authors.initials: IS
authors.lastname: Vlachos
authors.affiliation: Hellenic Pasteur Institute, 127 Vasilissis Sofias Avenue, Athens, 11521, Greece. arhatzig@uth.gr.|Department of Electrical & Computer Engineering, University of Thessaly, Volos, 382 21, Greece. arhatzig@uth.gr.
authors.forename: Artemis G
authors.initials: AG
authors.lastname: Hatzigeorgiou
mesh_terms: D000465:Algorithms; D001665:Binding Sites; D030541:Databases, Genetic; D005786:Gene Expression Regulation; D006801:Humans; D020407:Internet; D035683:MicroRNAs / Q000235:genetics*; D012333:RNA, Messenger / Q000235:genetics; D012984:Software
chemical_list: D035683:MicroRNAs; D012333:RNA, Messenger
keywords: CLIP-Seq; Gene ontology; Pathways; RNA-Seq; Small RNA-Seq; Transcription factor; Transcription start site; miRNA; miRNA-Seq; microRNA