background: rna plays key role in many aspects of biological processes and its tertiary structure is critical for its biological function. rna secondary structure represents various significant portions of rna tertiary structure. since the biological function of rna is concluded indirectly from its primary structure, it would be important to analyze the relations between the rna sequences and t...

Background: RNA plays key role in many aspects of biological processes and its tertiary structure is critical for its biological function. RNA secondary structure represents various significant portions of RNA tertiary structure. Since the biological function of RNA is concluded indirectly from its primary structure, it would be important to analyze the relations between the RNA sequences and t...

The aim of the inverse folding problem for RNA is, given a target structure like e.g. the one depicted in Fig. 1, find a sequence that folds into this structure. In this project we will exclusively focus on the secondary structure. The main driving force behind RNA structure formation is the creation of base pairs similar to the ones observed in the DNA double helical structure. In RNA thymine ...

Artificially synthesized RNA molecules have recently come under study since such molecules have a potential for creating a variety of novel functional molecules. When designing artificial RNA sequences, secondary structure should be taken into account since functions of noncoding RNAs strongly depend on their structure. RNA inverse folding is a methodology for computationally exploring the RNA ...

Computational programs for predicting RNA sequences with desired folding properties have been extensively developed and expanded in the past several years. Given a secondary structure, these programs aim to predict sequences that fold into a target minimum free energy secondary structure, while considering various constraints. This procedure is called inverse RNA folding. Inverse RNA folding ha...

In the Oxford Summer School in Computational Biology 2011, one of the projects was aimed at creating an improved method for inverse RNA folding based on a genetic algorithm (GA) approach. This turned out to be sufficiently successful [16] and inspiring, that we will extend on it in this year’s summer school. The inverse RNA folding problem consists of finding an RNA sequence that, as a molecule...

RNA inverse folding is a computational technology for designing RNA sequences which fold into a user-specified secondary structure. Although pseudoknots are functionally important motifs in RNA structures, less reports concerning the inverse folding of pseudoknotted RNAs have been done compared to those for pseudoknot-free RNA design. In this paper, we present a new version of our multi-objecti...