RNAbor: a web server for RNA structural neighbors

Eva Freyhult, Vincent Moulton, Peter Clote

Research output: Contribution to journalArticlepeer-review

15 Citations (Scopus)


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.
Original languageEnglish
Pages (from-to)W305-W309
Number of pages5
JournalNucleic Acids Research
Issue numbersuppl 2
Publication statusPublished - 2007

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