Name
Abstract | ||
|---|---|---|
Chemical mapping experiments allow for nucleotide resolution assessment of RNA structure. We demonstrate that different strategies of integrating probing data with thermodynamics-based RNA secondary structure prediction algorithms can be implemented by means of soft constraints. This amounts to incorporating suitable pseudo-energies into the standard energy model for RNA secondary structures. As a showcase application for this new feature of the ViennaRNA Package we compare three distinct, previously published strategies to utilize SHAPE reactivities for structure prediction. The new tool is benchmarked on a set of RNAs with known reference structure. |
Year | DOI | Venue |
|---|---|---|
2016 | 10.1093/bioinformatics/btv523 | BIOINFORMATICS |
Field | DocType | Volume |
RNA,Nucleic acid structure,Computer science,Rna folding,Rna secondary structure prediction,Bioinformatics | Journal | 32 |
Issue | ISSN | Citations |
1 | 1367-4803 | 4 |
PageRank | References | Authors |
0.46 | 3 | 5 |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Ronny Lorenz | 1 | 190 | 11.89 |
| Dominik Luntzer | 2 | 4 | 0.46 |
| Ivo L. Hofacker | 3 | 1669 | 131.57 |
| Peter F. Stadler | 4 | 1839 | 152.96 |
| Michael T Wolfinger | 5 | 16 | 2.18 |