The RNA shapes studio

Janssen S, Giegerich R (2014)
Bioinformatics 31(3): 423-425.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Abstract / Bemerkung
Motivation: Abstract shape analysis, first proposed in 2004, allows one to extract several relevant structures from the folding space of an RNA sequence, preferable to focusing in a single structure of minimal free energy. We report recent extensions to this approach.Results: We have rebuilt the original RNAshapes as a repository of components that allows us to integrate several established tools for RNA structure analysis: RNAshapes, RNAalishapes and pknotsRG, including its recent extension pKiss. As a spin-off, we obtain heretofore unavailable functionality: e. g. with pKiss, we can now perform abstract shape analysis for structures holding pseudoknots up to the complexity of kissing hairpin motifs. The new tool pAliKiss can predict kissing hairpin motifs from aligned sequences. Along with the integration, the functionality of the tools was also extended in manifold ways.Availability and implementation: As before, the tool is available on the Bielefeld Bioinformatics server at http://bibiserv.cebitec.uni-bielefeld.de/rnashapesstudio.Contact: bibi-help@cebitec.uni-bielefeld.de
Erscheinungsjahr
2014
Zeitschriftentitel
Bioinformatics
Band
31
Ausgabe
3
Seite(n)
423-425
ISSN
1367-4803
eISSN
1460-2059
Page URI
https://pub.uni-bielefeld.de/record/2700599

Zitieren

Janssen S, Giegerich R. The RNA shapes studio. Bioinformatics. 2014;31(3):423-425.
Janssen, S., & Giegerich, R. (2014). The RNA shapes studio. Bioinformatics, 31(3), 423-425. doi:10.1093/bioinformatics/btu649
Janssen, S., and Giegerich, R. (2014). The RNA shapes studio. Bioinformatics 31, 423-425.
Janssen, S., & Giegerich, R., 2014. The RNA shapes studio. Bioinformatics, 31(3), p 423-425.
S. Janssen and R. Giegerich, “The RNA shapes studio”, Bioinformatics, vol. 31, 2014, pp. 423-425.
Janssen, S., Giegerich, R.: The RNA shapes studio. Bioinformatics. 31, 423-425 (2014).
Janssen, Stefan, and Giegerich, Robert. “The RNA shapes studio”. Bioinformatics 31.3 (2014): 423-425.

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