Dear all, I am working on circular RNA and miRNA. I used the tool DCC to get possible circular RNA candidates from my STAR alignment. Since it is know that circular RNA expression can effect miRNA in various ways (et vice versa), I would like to compute the likelihood that one specific circRNA binds to a miRNA (or vice versa). Since some of my circRNAs are not annotated yet, I can just use the genomic coordinates and the according sequence. It would be too simplistic to just compare the sequences of circRNA and miRNA, without taking spatial structure and other binding proteins into account. I have done quite some literature research, but I could not find any approach (mathematical nor data base), which deals with such a problem.
Does someone of you guys have a similar problem or a suggestion?