TurboFold: iterative probabilistic estimation of secondary structures for multiple RNA sequences.

ABSTRACT:

Background

The prediction of secondary structure, i.e. the set of canonical base pairs between nucleotides, is a first step in developing an understanding of the function of an RNA sequence. The most accurate computational methods predict conserved structures for a set of homologous RNA sequences. These methods usually suffer from high computational complexity. In this paper, TurboFold, a novel and efficient method for secondary structure prediction for multiple RNA sequences, is presented.

Results

TurboFold takes, as input, a set of homologous RNA sequences and outputs estimates of the base pairing probabilities for each sequence. The base pairing probabilities for a sequence are estimated by combining intrinsic information, derived from the sequence itself via the nearest

SUBMITTER: Harmanci AO 

PROVIDER: S-EPMC3120699 | biostudies-literature | 2011 Apr

REPOSITORIES: biostudies-literature