ScanFold 2.0: a rapid approach for identifying potential structured RNA targets in genomes and transcriptomes.

ABSTRACT: A major limiting factor in target discovery for both basic research and therapeutic intervention is the identification of structural and/or functional RNA elements in genomes and transcriptomes. This was the impetus for the original ScanFold algorithm, which provides maps of local RNA structural stability, evidence of sequence-ordered (potentially evolved) structure, and unique model structures comprised of recurring base pairs with the greatest structural bias. A key step in quantifying this propensity for ordered structure is the prediction of secondary structural stability for randomized sequences which, in the original implementation of ScanFold, is explicitly evaluated. This slow process has limited the rapid identification of ordered structures in large genomes/transcriptomes, which

SUBMITTER: Andrews RJ 

PROVIDER: S-EPMC9651051 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature