From Structure Prediction to Genomic Screens for Novel Non-Coding RNAs

by Gorodkin, Jan, Hofacker, Ivo L.
Published 2011

Forna (force-directed RNA): Simple and effective online RNA secondary structure diagrams

by Kerpedjiev, Peter, Hammer, Stefan, Hofacker, Ivo L.
Published 2015

The RNAz web server: prediction of thermodynamically stable and evolutionarily conserved RNA structures

by Gruber, Andreas R., Neuböck, Richard, Hofacker, Ivo L., Washietl, Stefan
Published 2007

RNA Accessibility in cubic time

by Bernhart, Stephan H, Mückstein, Ullrike, Hofacker, Ivo L
Published 2011

RNApredator: fast accessibility-based prediction of sRNA targets

by Eggenhofer, Florian, Tafer, Hakim, Stadler, Peter F., Hofacker, Ivo L.
Published 2011

RNA folding with soft constraints: reconciliation of probing data and thermodynamic secondary structure prediction

by Washietl, Stefan, Hofacker, Ivo L., Stadler, Peter F., Kellis, Manolis
Published 2012

CMCompare webserver: comparing RNA families via covariance models

by Eggenhofer, Florian, Hofacker, Ivo L., Höner zu Siederdissen, Christian
Published 2013

RNAlien – Unsupervised RNA family model construction

by Eggenhofer, Florian, Hofacker, Ivo L, Höner zu Siederdissen, Christian
Published 2016

RNA folding with hard and soft constraints

by Lorenz, Ronny, Hofacker, Ivo L., Stadler, Peter F.
Published 2016

Pseudoknots in RNA folding landscapes

by Kucharík, Marcel, Hofacker, Ivo L., Stadler, Peter F., Qin, Jing
Published 2016

Partition function and base pairing probabilities of RNA heterodimers

by Bernhart, Stephan H, Tafer, Hakim, Mückstein, Ulrike, Flamm, Christoph, Stadler, Peter F, Hofacker, Ivo L
Published 2006

Multiple sequence alignments of partially coding nucleic acid sequences

by Stocsits, Roman R, Hofacker, Ivo L, Fried, Claudia, Stadler, Peter F
Published 2005

Algebraic comparison of metabolic networks, phylogenetic inference, and metabolic innovation

by Forst, Christian V, Flamm, Christoph, Hofacker, Ivo L, Stadler, Peter F
Published 2006

Inferring Noncoding RNA Families and Classes by Means of Genome-Scale Structure-Based Clustering

by Will, Sebastian, Reiche, Kristin, Hofacker, Ivo L, Stadler, Peter F, Backofen, Rolf
Published 2007

A folding algorithm for extended RNA secondary structures

by zu Siederdissen, Christian Höner, Bernhart, Stephan H., Stadler, Peter F., Hofacker, Ivo L.
Published 2011

Detection of RNA structures in porcine EST data and related mammals

by Seemann, Stefan E, Gilchrist, Michael J, Hofacker, Ivo L, Stadler, Peter F, Gorodkin, Jan
Published 2007

The RNAsnp web server: predicting SNP effects on local RNA secondary structure

by Sabarinathan, Radhakrishnan, Tafer, Hakim, Seemann, Stefan E., Hofacker, Ivo L., Stadler, Peter F., Gorodkin, Jan
Published 2013

Automated identification of RNA 3D modules with discriminative power in RNA structural alignments

by Theis, Corinna, Höner zu Siederdissen, Christian, Hofacker, Ivo L., Gorodkin, Jan
Published 2013

RNAsnp: Efficient Detection of Local RNA Secondary Structure Changes Induced by SNPs

by Sabarinathan, Radhakrishnan, Tafer, Hakim, Seemann, Stefan E, Hofacker, Ivo L, Stadler, Peter F, Gorodkin, Jan
Published 2013

RNAsnp: Efficient Detection of Local RNA Secondary Structure Changes Induced by SNPs

by Sabarinathan, Radhakrishnan, Tafer, Hakim, Seemann, Stefan E, Hofacker, Ivo L, Stadler, Peter F, Gorodkin, Jan
Published 2013