| RNAxplorer: harnessing the power of guiding potentials to sample RNA landscapes | 0 | 0.34 | 2021 |
| The locality dilemma of Sankoff-like RNA alignments. | 0 | 0.34 | 2020 |
| Efficient Algorithms for Co-folding of Multiple RNAs. | 0 | 0.34 | 2020 |
| Bi-alignments as Models of Incongruent Evolution of RNA Sequence and Secondary Structure. | 0 | 0.34 | 2019 |
| Constraint Maximal Inter-molecular Helix Lengths within RNA-RNA Interaction Prediction Improves Bacterial sRNA Target Prediction | 0 | 0.34 | 2019 |
| IntaRNAhelix-composing RNA-RNA interactions from stable inter-molecular helices boosts bacterial sRNA target prediction. | 0 | 0.34 | 2019 |
| CMV: visualization for RNA and protein family models and their comparisons. | 1 | 0.35 | 2018 |
| RNAblueprint: flexible multiple target nucleic acid sequence design. | 1 | 0.36 | 2017 |
| Practical Guidelines for Incorporating Knowledge-Based and Data-Driven Strategies into the Inference of Gene Regulatory Networks | 1 | 0.35 | 2016 |
| Pseudoknots in RNA folding landscapes. | 2 | 0.41 | 2016 |
| Aresite2: An Enhanced Database For The Comprehensive Investigation Of Au/Gu/U-Rich Elements | 6 | 0.53 | 2016 |
| RNA folding with hard and soft constraints. | 4 | 0.53 | 2016 |
| SHAPE directed RNA folding. | 4 | 0.46 | 2016 |
| Computational Design of a Circular RNA with Prionlike Behavior. | 0 | 0.34 | 2016 |
| Forna (force-directed RNA): Simple and effective online RNA secondary structure diagrams | 23 | 1.48 | 2015 |
| TSSAR: TSS annotation regime for dRNA-seq data. | 6 | 0.43 | 2014 |
| Challenges in RNA virus bioinformatics. | 0 | 0.34 | 2014 |
| Basin Hopping Graph: a computational framework to characterize RNA folding landscapes. | 6 | 0.58 | 2014 |
| The Rnasnp Web Server: Predicting Snp Effects On Local Rna Secondary Structure | 3 | 0.40 | 2013 |
| 2D meets 4G: G-quadruplexes in RNA secondary structure prediction. | 5 | 0.58 | 2013 |
| The Trouble with Long-Range Base Pairs in RNA Folding | 2 | 0.38 | 2013 |
| How to Multiply Dynamic Programming Algorithms | 5 | 0.46 | 2013 |
| CMCompare webserver: comparing RNA families via covariance models. | 2 | 0.38 | 2013 |
| Folding RNA/DNA hybrid duplexes. | 0 | 0.34 | 2012 |
| RNA Folding Algorithms with G-Quadruplexes. | 1 | 0.36 | 2012 |
| Symmetric circular matchings and RNA folding | 2 | 0.39 | 2012 |
| From Structure Prediction To Genomic Screens For Novel Non-Coding Rnas | 4 | 0.41 | 2011 |
| Aresite: A Database For The Comprehensive Investigation Of Au-Rich Elements | 3 | 0.48 | 2011 |
| Rnapredator: Fast Accessibility-Based Prediction Of Srna Targets | 5 | 0.48 | 2011 |
| A folding algorithm for extended RNA secondary structures | 14 | 0.86 | 2011 |
| RNA Accessibility in cubic time. | 4 | 0.48 | 2011 |
| ViennaRNA Package 2.0. | 116 | 5.04 | 2011 |
| Fast accessibility-based prediction of RNA-RNA interactions. | 11 | 0.71 | 2011 |
| RNAsnoop: efficient target prediction for H/ACA snoRNAs. | 7 | 0.66 | 2010 |
| RNAz 2.0: Improved Noncoding RNA Detection. | 19 | 0.96 | 2010 |
| Discriminatory power of RNA family models | 7 | 0.51 | 2010 |
| Hybridization thermodynamics of NimbleGen microarrays. | 11 | 0.39 | 2010 |
| RNALfoldz: Efficient Prediction of Thermodynamically Stable, Local Secondary Structures | 1 | 0.35 | 2010 |
| 2D Projections of RNA Folding Landscapes | 6 | 0.53 | 2009 |
| RNAalifold: improved consensus structure prediction for RNA alignments. | 86 | 2.52 | 2008 |
| Strategies for measuring evolutionary conservation of RNA secondary structures. | 36 | 0.66 | 2008 |
| Translational Control by RNA-RNA Interaction: Improved Computation of RNA-RNA Binding Thermodynamics | 18 | 1.19 | 2008 |
| www.rnaworkbench.com: A new program for analyzing RNA interference | 0 | 0.34 | 2008 |
| RNAplex: a fast tool for RNA-RNA interaction search. | 30 | 1.53 | 2008 |
| The Vienna RNA Websuite. | 43 | 2.15 | 2008 |
| SnoReport: computational identification of snoRNAs with unknown targets. | 17 | 0.97 | 2008 |
| Inferring Noncoding Rna Families And Classes By Means Of Genome-Scale Structure-Based Clustering | 122 | 3.94 | 2007 |
| The Rnaz Web Server: Prediction Of Thermodynamically Stable And Evolutionarily Conserved Rna Structures | 8 | 0.98 | 2007 |
| Saddles and barrier in landscapes of generalized search operators | 2 | 0.37 | 2007 |
| Partition function and base pairing probabilities of RNA heterodimers | 58 | 3.47 | 2006 |
