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Visualization of Barrier Tree Sequences
Found in: IEEE Transactions on Visualization and Computer Graphics
By Christian Heine,Gerik Scheuermann,Christoph Flamm,Ivo L. Hofacker,Peter F. Stadler
Issue Date:September 2006
pp. 781-788
Dynamical models that explain the formation of spatial structures of RNA molecules have reached a complexity that requires novel visualization methods that help to analyze the validity of these models. Here, we focus on the visualization of so-called foldi...
 
2D Meets 4G: G-Quadruplexes in RNA Secondary Structure Prediction
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics
By Ronny Lorenz,Stephan H. Bernhart, Jing Qin,Christian Honer Zu Siederdissen,Andrea Tanzer,Fabian Amman,Ivo L. Hofacker,Peter F. Stadler
Issue Date:July 2013
pp. 832-844
G-quadruplexes are abundant locally stable structural elements in nucleic acids. The combinatorial theory of RNA structures and the dynamic programming algorithms for RNA secondary structure prediction are extended here to incorporate G-quadruplexes using ...
 
Prediction of Consensus RNA Secondary Structures Including Pseudoknots
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics
By Christina Witwer, Ivo L. Hofacker, Peter F. Stadler
Issue Date:April 2004
pp. 66-77
Most functional RNA molecules have characteristic structures that are highly conserved in evolution. Many of them contain pseudoknots. Here, we present a method for computing the consensus structures including pseudoknots based on alignments of a few seque...
 
2D Meets 4G: G-Quadruplexes in RNA Secondary Structure Prediction
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
By Andrea Tanzer, Christian Honer zu Siederdissen, Fabian Amman, Ivo L. Hofacker, Jing Qin, Peter F. Stadler, Ronny Lorenz, Stephan H. Bernhart
Issue Date:July 2013
pp. 832-844
G-quadruplexes are abundant locally stable structural elements in nucleic acids. The combinatorial theory of RNA structures and the dynamic programming algorithms for RNA secondary structure prediction are extended here to incorporate G-quadruplexes using ...
     
Prediction of Consensus RNA Secondary Structures Including Pseudoknots
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
By Christina Witwer, Ivo L. Hofacker, Peter F. Stadler
Issue Date:April 2004
pp. 66-77
Most functional RNA molecules have characteristic structures that are highly conserved in evolution. Many of them contain pseudoknots. Here, we present a method for computing the consensus structures including pseudoknots based on alignments of a few seque...
     
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