title: DIANA-LncBase: experimentally verified and computationally predicted microRNA targets on long non-coding RNAs.
abstract: Recently, the attention of the research community has been focused on long non-coding RNAs (lncRNAs) and their physiological/pathological implications. As the number of experiments increase in a rapid rate and transcriptional units are better annotated, databases indexing lncRNA properties and function gradually become essential tools to this process. Aim of DIANA-LncBase (www.microrna.gr/LncBase) is to reinforce researchers' attempts and unravel microRNA (miRNA)-lncRNA putative functional interactions. This study provides, for the first time, a comprehensive annotation of miRNA targets on lncRNAs. DIANA-LncBase hosts transcriptome-wide experimentally verified and computationally predicted miRNA recognition elements (MREs) on human and mouse lncRNAs. The analysis performed includes an integration of most of the available lncRNA resources, relevant high-throughput HITS-CLIP and PAR-CLIP experimental data as well as state-of-the-art in silico target predictions. The experimentally supported entries available in DIANA-LncBase correspond to >5000 interactions, while the computationally predicted interactions exceed 10 million. DIANA-LncBase hosts detailed information for each miRNA-lncRNA pair, such as external links, graphic plots of transcripts' genomic location, representation of the binding sites, lncRNA tissue expression as well as MREs conservation and prediction scores.
authors.affiliation: DIANA-Lab, Biomedical Sciences Research Center 'Alexander Fleming', 16672 Vari, Greece.
authors.forename: Maria D
authors.initials: MD
authors.lastname: Paraskevopoulou
authors.forename: Georgios
authors.initials: G
authors.lastname: Georgakilas
authors.forename: Nikos
authors.initials: N
authors.lastname: Kostoulas
authors.forename: Martin
authors.initials: M
authors.lastname: Reczko
authors.forename: Manolis
authors.initials: M
authors.lastname: Maragkakis
authors.forename: Theodore M
authors.initials: TM
authors.lastname: Dalamagas
authors.forename: Artemis G
authors.initials: AG
authors.lastname: Hatzigeorgiou
mesh_terms: D000818:Animals; D001665:Binding Sites; D019295:Computational Biology; D030561:Databases, Nucleic Acid; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D020407:Internet; D051379:Mice; D035683:MicroRNAs / Q000737:chemistry* / Q000378:metabolism*; D062085:RNA, Long Noncoding / Q000737:chemistry* / Q000378:metabolism*; D017423:Sequence Analysis, RNA
chemical_list: D035683:MicroRNAs; D062085:RNA, Long Noncoding