Fig. 3

CyTRANSFINDER built-in STPPs. The figure presents the five default STPPs embedded in the plugin. i) Direct miRNA STPP is the simplest pattern: a source gene hosts a intragenic mirna miRNA or is located close to the region of an intergenic miRNA, which targets one of the destination genes. ii) Indirect miRNA STPP, is pretty similar to the Direct miRNA STPP, but it involves a TF as miRNA mediator for the regulation of the destination genes. iii) the miRNA sourced version of (ii). iv) Double miRNA indirect STPP is the most complex pattern. It involves two levels of regulation; the first indirect regulation is modeled on top of an Indirect miRNA STPP, which regulates a Direct miRNA STPP that targets the destination genes. v) The miRNA sourced version of (iv)