RNAspa: a shortest path approach for comparative prediction of the secondary structure of ncRNA molecules.

ABSTRACT:

Background

In recent years, RNA molecules that are not translated into proteins (ncRNAs) have drawn a great deal of attention, as they were shown to be involved in many cellular functions. One of the most important computational problems regarding ncRNA is to predict the secondary structure of a molecule from its sequence. In particular, we attempted to predict the secondary structure for a set of unaligned ncRNA molecules that are taken from the same family, and thus presumably have a similar structure.

Results

We developed the RNAspa program, which comparatively predicts the secondary structure for a set of ncRNA molecules in linear time in the number of molecules. We observed that in a list of several hundred suboptimal minimal free energy (MFE) predictions, as provided b

SUBMITTER: Horesh Y 

PROVIDER: S-EPMC2147038 | biostudies-literature | 2007 Oct

REPOSITORIES: biostudies-literature