Multi-objective optimization for RNA design with multiple target secondary structures.

ABSTRACT:

Background

RNAs are attractive molecules as the biological parts for synthetic biology. In particular, the ability of conformational changes, which can be encoded in designer RNAs, enables us to create multistable molecular switches that function in biological circuits. Although various algorithms for designing such RNA switches have been proposed, the previous algorithms optimize the RNA sequences against the weighted sum of objective functions, where empirical weights among objective functions are used. In addition, an RNA design algorithm for multiple pseudoknot targets is currently not available.

Results

We developed a novel computational tool for automatically designing RNA sequences which fold into multiple target secondary structures. Our algorithm designs RNA sequenc

SUBMITTER: Taneda A 

PROVIDER: S-EPMC4559319 | biostudies-literature | 2015 Sep

REPOSITORIES: biostudies-literature