An image processing approach to computing distances between RNA secondary structures dot plots.

ABSTRACT:

Background

Computing the distance between two RNA secondary structures can contribute in understanding the functional relationship between them. When used repeatedly, such a procedure may lead to finding a query RNA structure of interest in a database of structures. Several methods are available for computing distances between RNAs represented as strings or graphs, but none utilize the RNA representation with dot plots. Since dot plots are essentially digital images, there is a clear motivation to devise an algorithm for computing the distance between dot plots based on image processing methods.

Results

We have developed a new metric dubbed 'DoPloCompare', which compares two RNA structures. The method is based on comparing dot plot diagrams that represent the secondary struc

SUBMITTER: Ivry T 

PROVIDER: S-EPMC2677394 | biostudies-literature | 2009 Feb

REPOSITORIES: biostudies-literature