R-CHIE: a web server and R package for visualizing RNA secondary structures.

ABSTRACT: Visually examining RNA structures can greatly aid in understanding their potential functional roles and in evaluating the performance of structure prediction algorithms. As many functional roles of RNA structures can already be studied given the secondary structure of the RNA, various methods have been devised for visualizing RNA secondary structures. Most of these methods depict a given RNA secondary structure as a planar graph consisting of base-paired stems interconnected by roundish loops. In this article, we present an alternative method of depicting RNA secondary structure as arc diagrams. This is well suited for structures that are difficult or impossible to represent as planar stem-loop diagrams. Arc diagrams can intuitively display pseudo-knotted structures, as well as transient a

SUBMITTER: Lai D 

PROVIDER: S-EPMC3384350 | biostudies-literature | 2012 Jul

REPOSITORIES: biostudies-literature