We present an implementation of McCaskill's algorithm for computing the base pair probabilities of an RNA molecule for massively parallel message passing architectures. The p...
TurboFold, an iterative algorithm for estimating the common secondary structures of multiple RNA homologs, is presented. The algorithm is motivated by and has structure and attrib...
Gaurav Sharma, Arif Ozgun Harmanci, David H. Mathe...
A small class of RNA molecules, in particular the tiny genomes of viroids, are circular. Yet most structure prediction algorithms handle only linear RNAs. The most straightforward ...
Graphics processing units (GPU) on commodity video cards have evolved into powerful computational devices. The RNA secondary structure arises from the primary structure and a backb...
Motivation: Since the whole genome sequences for many species are currently available, computational predictions of RNA secondary structures and computational identifications of t...