TurboFold: Iterative probabilistic estimation of secondary structures for multiple RNA sequences

RNAstructure: software for RNA secondary structure prediction and analysis

(2010) Jessica S Reuter et al.   BMC BIOINFORMATICS

Improving the accuracy of predicting secondary structure for aligned RNA sequences

(2010) Michiaki Hamada et al.   NUCLEIC ACIDS RESEARCH

Stochastic sampling of the RNA structural alignment space

(2009) Arif Ozgun Harmanci et al.   NUCLEIC ACIDS RESEARCH

The RNA structure alignment ontology

(2009) J. W. Brown et al.   RNA

Improved RNA secondary structure prediction by maximizing expected pair accuracy

(2009) Z. J. Lu et al.   RNA

De novo prediction of structured RNAs from genomic sequences

(2009) Jan Gorodkin et al.   TRENDS IN BIOTECHNOLOGY

Prediction of RNA secondary structure using generalized centroid estimators

(2008) Michiaki Hamada et al.   BIOINFORMATICS

A fast structural multiple alignment method for long RNA sequences

(2008) Yasuo Tabei et al.   BMC BIOINFORMATICS

RNAalifold: improved consensus structure prediction for RNA alignments

(2008) Stephan H Bernhart et al.   BMC BIOINFORMATICS

PARTS: Probabilistic Alignment for RNA joinT Secondary structure prediction

(2008) Arif Ozgun Harmanci et al.   NUCLEIC ACIDS RESEARCH

Accurate SHAPE-directed RNA structure determination

(2008) K. E. Deigan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA