CupidTool
Cupid: simultaneous reconstruction of miRNA-target and ceRNA networks
Chiu et. al., Genome Research 2014
Cupid is a method for simultaneous prediction of miRNA-target interactions and their mediated competitive endogenous RNA (ceRNA) interactions.
We showed that our integrative approach significantly improves on miRNA-target prediction accuracy as assessed by both mRNA and protein level measurements in breast cancer cell lines.
Cupid is implemented in 3 steps:
Step 1: re-evaluate candidate miRNA binding sites in 3’ UTRs, as inferred by TargetScan, miRanda...