omiRas: A Web server for differential expression analysis of miRNAs derived from small RNA-Seq data

Small RNA deep sequencing is widely used to characterize non-coding RNAs (ncRNAs) differentially expressed between two conditions, e.g. healthy and diseased individuals, and to reveal insights into molecular mechanisms underlying condition-specific phenotypic traits. The ncRNAome is composed of a multitude of RNAs such as transfer RNA (tRNA), small nucleolar RNA (snoRNA) and microRNA (miRNA), to name few.

Here, a team led by researchers at the University of Frankfurt am Main, Germany present omiRas, a Web server for the annotation, comparison and visualization of interaction networks of ncRNAs derived from NGS experiments of two different conditions. The Web tool allows the user to submit raw sequencing data, and results are presented as: (i) static annotation results including length distribution, mapping statistics, alignments and quantification tables for each library as well as lists of differentially expressed ncRNAs between conditions and (ii) an interactive network visualization of user-selected miRNAs and their target genes based on the combination of several miRNA-mRNA interaction databases.

rna-seq

AVAILABILITY: The omiRas Web server is implemented in Python, PostgreSQL, R and can be accessed at: http://tools.genxpro.net/omiras/.

CONTACT: rotter@genxpro.de

Müller S, Rycak L, Winter P, Kahl G, Koch I, Rotter B. (2013) omiRas: A Web server for differential expression analysis of miRNAs derived from small RNA-Seq data. Bioinformatics [Epub ahead of print]. [abstract]