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Freyhult, Eva, Moulton, Vincent 
ORCID: https://orcid.org/0000-0001-9371-6435 and Clote, Peter
(2007)
RNAbor: a web server for RNA structural neighbors.
Nucleic Acids Research, 35 (suppl 2).
W305-W309.
ISSN 0305-1048
Abstract
RNAbor provides a new tool for researchers in the biological and related sciences to explore important aspects of RNA secondary structure and folding pathways. RNAbor computes statistics concerning d-neighbors of a given input RNA sequence and structure (the structure can, for example, be the minimum free energy (MFE) structure). A d-neighbor is a structure that differs from the input structure by exactly d base pairs, that is, it can be obtained from the input structure by adding and/or removing exactly d base pairs. For each distance d RNAbor computes the density of d-neighbors, the number of d-neighbors, and the MFE structure, or MFE d structure, among all d-neighbors. RNAbor can be used to study possible folding pathways, to determine alternate low-energy structures, to predict potential nucleation sites and to explore structural neighbors of an intermediate, biologically active structure. The web server is available at http://bioinformatics.bc.edu/clotelab/RNAbor.
| Item Type: | Article |
|---|---|
| Faculty \ School: | Faculty of Science > School of Computing Sciences |
| UEA Research Groups: | Faculty of Science > Research Groups > Norwich Epidemiology Centre Faculty of Medicine and Health Sciences > Research Groups > Norwich Epidemiology Centre Faculty of Science > Research Groups > Computational Biology Faculty of Science > Research Groups > Computational Biology > Computational biology of RNA (former - to 2018) Faculty of Science > Research Groups > Computational Biology > Phylogenetics (former - to 2018) |
| Depositing User: | Vishal Gautam |
| Date Deposited: | 16 May 2011 17:20 |
| Last Modified: | 16 Jun 2023 00:02 |
| URI: | https://ueaeprints.uea.ac.uk/id/eprint/23642 |
| DOI: | 10.1093/nar/gkm255 |
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