Thermodynamic matchers: strengthening the significance of RNA folding energies

Höchsmann T, Höchsmann M, Giegerich R (2006)
Comput Syst Bioinformatics Conf: 111-121.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Abstract / Bemerkung
Thermodynamic RNA secondary structure prediction is an important recipe for the latest generation of functional non-coding RNA finding tools. However, the predicted energy is not strong enough by itself to distinguish a single functional non-coding RNA from other RNA. Here, we analyze how well an RNA molecule folds into a particular structural class with a restricted folding algorithm called Thermodynamic Matcher (TDM). We compare this energy value to that of randomized sequences. We construct and apply TDMs for the non-coding RNA families RNA I and hammerhead ribozyme type III and our results show that using TDMs rather than universal minimum free energy folding allows for highly significant predictions.
Erscheinungsjahr
2006
Zeitschriftentitel
Comput Syst Bioinformatics Conf
Seite(n)
111-121
ISSN
1752-7791
Page URI
https://pub.uni-bielefeld.de/record/1946336

Zitieren

Höchsmann T, Höchsmann M, Giegerich R. Thermodynamic matchers: strengthening the significance of RNA folding energies. Comput Syst Bioinformatics Conf. 2006:111-121.
Höchsmann, T., Höchsmann, M., & Giegerich, R. (2006). Thermodynamic matchers: strengthening the significance of RNA folding energies. Comput Syst Bioinformatics Conf, 111-121. https://doi.org/10.1142/1860947573_0021
Höchsmann, T., Höchsmann, M., and Giegerich, R. (2006). Thermodynamic matchers: strengthening the significance of RNA folding energies. Comput Syst Bioinformatics Conf, 111-121.
Höchsmann, T., Höchsmann, M., & Giegerich, R., 2006. Thermodynamic matchers: strengthening the significance of RNA folding energies. Comput Syst Bioinformatics Conf, , p 111-121.
T. Höchsmann, M. Höchsmann, and R. Giegerich, “Thermodynamic matchers: strengthening the significance of RNA folding energies”, Comput Syst Bioinformatics Conf, 2006, pp. 111-121.
Höchsmann, T., Höchsmann, M., Giegerich, R.: Thermodynamic matchers: strengthening the significance of RNA folding energies. Comput Syst Bioinformatics Conf. 111-121 (2006).
Höchsmann, Thomas, Höchsmann, Matthias, and Giegerich, Robert. “Thermodynamic matchers: strengthening the significance of RNA folding energies”. Comput Syst Bioinformatics Conf (2006): 111-121.

3 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Thermodynamic matchers for the construction of the cuckoo RNA family.
Reinkensmeier J, Giegerich R., RNA Biol 12(2), 2015
PMID: 25779873
A genome-wide survey of sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobium meliloti.
Schlüter JP, Reinkensmeier J, Daschkey S, Evguenieva-Hackenberg E, Janssen S, Jänicke S, Becker JD, Giegerich R, Becker A., BMC Genomics 11(), 2010
PMID: 20398411

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