Accelerated RNA secondary structure design using preselected sequences for helices and loops.

ABSTRACT: Nucleic acids can be designed to be nano-machines, pharmaceuticals, or probes. RNA secondary structures can form the basis of self-assembling nanostructures. There are only four natural RNA bases, therefore it can be difficult to design sequences that fold to a single, specified structure because many other structures are often possible for a given sequence. One approach taken by state-of-the-art sequence design methods is to select sequences that fold to the specified structure using stochastic, iterative refinement. The goal of this work is to accelerate design. Many existing iterative methods select and refine sequences one base pair and one unpaired nucleotide at a time. Here, the hypothesis that sequences can be preselected in order to accelerate design was tested. To this aim, a data

SUBMITTER: Bellaousov S 

PROVIDER: S-EPMC6191713 | biostudies-literature | 2018 Nov

REPOSITORIES: biostudies-literature