Evaluating the effect of disturbed ensemble distributions on SCFG based statistical sampling of RNA secondary structures.

ABSTRACT:

Background

Over the past years, statistical and Bayesian approaches have become increasingly appreciated to address the long-standing problem of computational RNA structure prediction. Recently, a novel probabilistic method for the prediction of RNA secondary structures from a single sequence has been studied which is based on generating statistically representative and reproducible samples of the entire ensemble of feasible structures for a particular input sequence. This method samples the possible foldings from a distribution implied by a sophisticated (traditional or length-dependent) stochastic context-free grammar (SCFG) that mirrors the standard thermodynamic model applied in modern physics-based prediction algorithms. Specifically, that grammar represents an exact probabili

SUBMITTER: Scheid A 

PROVIDER: S-EPMC3871765 | biostudies-literature | 2012 Jul

REPOSITORIES: biostudies-literature