MiRonTop: mining microRNAs targets across large scale gene expression studies

• Published in: Bioinformatics 2010-12, Vol.26 (24), p.3131-3132
• Main Authors: Le Brigand, Kevin, Robbe-Sermesant, Karine, Mari, Bernard, Barbry, Pascal
• Format: Article
• Language: English
• Subjects: 3' Untranslated Regions; Applications Note; Biological and medical sciences; Data Mining; Fundamental and applied biological sciences. Psychology; Gene Expression; Gene Expression Profiling; Gene Expression Regulation; General aspects; Internet; Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects); MicroRNAs - metabolism; Oligonucleotide Array Sequence Analysis; RNA, Messenger - metabolism; Software
• ISSN: 1367-4803; 1460-2059; 1367-4811
• DOI: 10.1093/bioinformatics/btq589

Current challenges in microRNA (miRNA) research are to improve the identification of in vivo mRNA targets and clarify the complex interplay existing between a specific miRNA and multiple biological networks. MiRonTop is an online java web tool that integrates DNA microarrays or high-throughput sequencing data to identify the potential implication of miRNAs on a specific biological system. It allows a rapid characterization of the most pertinent mRNA targets according to several existing miRNA target prediction approaches. It also provides useful representations of the enrichment scores according to the position of the target site along the 3′-UTR, where the contribution of the sites located in the vicinity of the stop codon and of the polyA tail can be clearly highlighted. It provides different graphs of miRNA enrichment associated with up- or down-regulated transcripts and different summary tables about selections of mRNA targets and their functional annotations by Gene Ontology. Availability: http://www.microarray.fr:8080/miRonTop/index Contact: [e-mail]