A majority of viral and prokaryotic systems involve RNA-RNA interactions that are often mediated by interactions between residues in the single stranded regions of the RNA. Though sequence based analysis of the RNA interacting partners is available, there is a dearth of knowledge at the structure level. This project is aimed at predicting the possible RNA – RNA interactions in systems such as mRNA and viral genomic RNA. Here we would be representing the RNA secondary structure as a graph, thereby reducing the computational burden of scanning the entire RNA space. Students will be exposed to the mathematical nuances in graph theory and its application in predicting RNA – RNA interactions.