RNA Inverse Folding Approach Using Simulated SHAPE-Reactivity Data

The RNA inverse folding problem consists of determining one or more sequences, whose secondary structure is the target structure. Here, the SHAPE-reactivity of the RNA is simulated through distribution functions and the information is used in genetic algorithms to solve the problem.

Comparing RNA Secondary Structure Dot Plots Using Image Processing Techniques

In this thesis, each RNA secondary structure is modeled by a dot plot diagram. The distance between two dot plots is calculated through histogram correlations and geometrical distance measures. Here, unlike other simple dot plots, RNA stems, bulges, hairpins, etc are painted with different colors.. The results show that this approach achieves more accuracy.