miRNAkey - A software pipeline for the analysis of microRNA Deep Sequencing data


Deep Sequencing technologies (Next Generation Sequencing) are increasingly used to obtain a more accurate depiction of miRNA expression profiles in living cells. This type of analysis is a key step towards improving our understanding of the complexity and mode of miRNA regulation. miRNAkey is a software package designed to be used as a base-station for the analysis of miRNA deep sequencing data. Our package implements common steps taken in the analysis of such data, as well as adds unique features, such as data statistics and multiple mapping levels, generating a novel platform for the analysis of miRNA expression. Through the use of a simple graphical interface, the user can determine the analysis steps. The tabular and graphical output contains detailed reports on the sequence reads and provides an accurate picture of the differentially expressed miRNAs in paired samples.

Run miRNAkey

More Information

See our Manual Page for an overview of the pipeline workflow and a detailed explanation of the output.

Sample Datasets


Questions, suggestions and bug reports can be sent to miRNAkey at gmail dot com

Useful Links

Please cite miRNAkey as follows:
Roy Ronen; Ido Gan; Shira Modai;Alona Sukacheov; Gideon Dror; Eran Halperin; Noam Shomron. miRNAkey: a software for microRNA Deep Sequencing analysis. Bioinformatics 2010; doi: 10.1093/bioinformatics/btq493