MiRModule is a software tool for systematic discovery of miRNA modules from a set of predefined miRNA target sites. Given a sets of miRNA binding sites, miRModule efficiently identifies groups of miRNAs, whose binding sites significantly co-occur in the same set of target mRNAs, as putative miRNA modules. It works for both experimentally determined miRNA-mRNA binding sites (e.g. from CLASH) and computationally predicted miRNA-mRNA binding sites (e.g. from miRanda).
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MicroRNA modules prefer to bind weak and unconventional target sites.
Ding J, Li X, Hu H.
Bioinformatics. 2014 Dec 18. pii: btu833.