I have three lists of microRNAs that change significantly (each consisting of 20-30 microRNAs)
For each list, I want to find what the top messenger RNAs (mRNAs) predicted targets.
Something similar to this is on microRNA.org (where I choose mouse, input my mRNAs, then click on "view mRNAs targeted by ALL selected miRNAs"
However, for some of my lists that have too many miRNAs, microrna.org finds no genes that overlap. Instead, I would like a way to find the best genes that overlap the most, or somehow score the highest among a list of chosen miRNAs.
I have also explored DIANA miRPath, where a list of entered miRNAs are enriched into pathways. This, however, only shows me the genes that are involved in the KEGG pathways of interest.
I am interested in rounding down a large list of miRNAs into a small number of top mRNA targets which I can analyze using qPCR.