Evaluating the Effect of Disturbed Ensemble Distributions on SCFG Based Statistical Sampling of RNA Secondary Structures

Scheid A, Nebel M (2012)
BMC Bioinformatics 13(1): 159.

Zeitschriftenaufsatz | Englisch
 
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Autor*in
Scheid, Anika; Nebel, MarkusUniBi
Erscheinungsjahr
2012
Zeitschriftentitel
BMC Bioinformatics
Band
13
Ausgabe
1
Art.-Nr.
159
ISSN
1471-2105
Page URI
https://pub.uni-bielefeld.de/record/2910010

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Scheid A, Nebel M. Evaluating the Effect of Disturbed Ensemble Distributions on SCFG Based Statistical Sampling of RNA Secondary Structures. BMC Bioinformatics. 2012;13(1): 159.
Scheid, A., & Nebel, M. (2012). Evaluating the Effect of Disturbed Ensemble Distributions on SCFG Based Statistical Sampling of RNA Secondary Structures. BMC Bioinformatics, 13(1), 159. doi:10.1186/1471-2105-13-159
Scheid, Anika, and Nebel, Markus. 2012. “Evaluating the Effect of Disturbed Ensemble Distributions on SCFG Based Statistical Sampling of RNA Secondary Structures”. BMC Bioinformatics 13 (1): 159.
Scheid, A., and Nebel, M. (2012). Evaluating the Effect of Disturbed Ensemble Distributions on SCFG Based Statistical Sampling of RNA Secondary Structures. BMC Bioinformatics 13:159.
Scheid, A., & Nebel, M., 2012. Evaluating the Effect of Disturbed Ensemble Distributions on SCFG Based Statistical Sampling of RNA Secondary Structures. BMC Bioinformatics, 13(1): 159.
A. Scheid and M. Nebel, “Evaluating the Effect of Disturbed Ensemble Distributions on SCFG Based Statistical Sampling of RNA Secondary Structures”, BMC Bioinformatics, vol. 13, 2012, : 159.
Scheid, A., Nebel, M.: Evaluating the Effect of Disturbed Ensemble Distributions on SCFG Based Statistical Sampling of RNA Secondary Structures. BMC Bioinformatics. 13, : 159 (2012).
Scheid, Anika, and Nebel, Markus. “Evaluating the Effect of Disturbed Ensemble Distributions on SCFG Based Statistical Sampling of RNA Secondary Structures”. BMC Bioinformatics 13.1 (2012): 159.

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Daten bereitgestellt von Europe PubMed Central.

39 References

Daten bereitgestellt von Europe PubMed Central.

Pfold: RNA secondary structure prediction using stochastic context-free grammars.
Knudsen B, Hein J., Nucleic Acids Res. 31(13), 2003
PMID: 12824339
Fast algorithm for predicting the secondary structure of single-stranded RNA.
Nussinov R, Jacobson AB., Proc. Natl. Acad. Sci. U.S.A. 77(11), 1980
PMID: 6161375
Algorithms for loop matchings
AUTHOR UNKNOWN, 1978
Conformational transitions in viroids and virusoids: comparison of results from energy minimization algorithm and from experimental data.
Steger G, Hofmann H, Fortsch J, Gross HJ, Randles JW, Sanger HL, Riesner D., J. Biomol. Struct. Dyn. 2(3), 1984
PMID: 6086063
Complete suboptimal folding of RNA and the stability of secondary structures.
Wuchty S, Fontana W, Hofacker IL, Schuster P., Biopolymers 49(2), 1999
PMID: 10070264
On finding all suboptimal foldings of an RNA molecule.
Zuker M., Science 244(4900), 1989
PMID: 2468181
Fast folding and comparison of RNA secondary structures (the Vienna RNA package)
AUTHOR UNKNOWN, 1994
Vienna RNA secondary structure server.
Hofacker IL., Nucleic Acids Res. 31(13), 2003
PMID: 12824340
A statistical sampling algorithm for RNA secondary structure prediction.
Ding Y, Lawrence CE., Nucleic Acids Res. 31(24), 2003
PMID: 14654704
Sfold web server for statistical folding and rational design of nucleic acids.
Ding Y, Chan CY, Lawrence CE., Nucleic Acids Res. 32(Web Server issue), 2004
PMID: 15215366
CONTRAfold: RNA secondary structure prediction without physics-based models.
Do CB, Woods DA, Batzoglou S., Bioinformatics 22(14), 2006
PMID: 16873527
Computational approaches for RNA energy parameter estimation.
Andronescu M, Condon A, Hoos HH, Mathews DH, Murphy KP., RNA 16(12), 2010
PMID: 20940338
Prediction of RNA secondary structure using generalized centroid estimators.
Hamada M, Kiryu H, Sato K, Mituyama T, Asai K., Bioinformatics 25(4), 2008
PMID: 19095700
Efficient parameter estimation for RNA secondary structure prediction.
Andronescu M, Condon A, Hoos HH, Mathews DH, Murphy KP., Bioinformatics 23(13), 2007
PMID: 17646296
Rich parameterization improves RNA structure prediction.
Zakov S, Goldberg Y, Elhadad M, Ziv-Ukelson M., J. Comput. Biol. 18(11), 2011
PMID: 22035327
Analysis of the free energy in a stochastic RNA secondary structure model
AUTHOR UNKNOWN, 2011
Statistical RNA secondary structure sampling based on a length-dependent SCFG model.
AUTHOR UNKNOWN, 0
Applying length-dependent stochastic context-free grammars to RNA secondary structure prediction
AUTHOR UNKNOWN, 2011
Parametrized stochastic grammars for RNA secondary structure prediction
AUTHOR UNKNOWN, 2007
Query-dependent banding (QDB) for faster RNA similarity searches.
Nawrocki EP, Eddy SR., PLoS Comput. Biol. 3(3), 2007
PMID: 17397253
A n2 RNA secondary structure prediction algorithm
AUTHOR UNKNOWN, 2012
On stochastic context-free languages
AUTHOR UNKNOWN, 1971
Enumeration of RNA secondary structures by complexity
AUTHOR UNKNOWN, 1985
Compilation of tRNA sequences and sequences of tRNA genes.
Sprinzl M, Horn C, Brown M, Ioudovitch A, Steinberg S., Nucleic Acids Res. 26(1), 1998
PMID: 9399820
5S Ribosomal RNA Database.
Szymanski M, Barciszewska MZ, Erdmann VA, Barciszewski J., Nucleic Acids Res. 30(1), 2002
PMID: 11752286
Assessing the accuracy of prediction algorithms for classification: an overview.
Baldi P, Brunak S, Chauvin Y, Andersen CA, Nielsen H., Bioinformatics 16(5), 2000
PMID: 10871264
Abstract shapes of RNA.
Giegerich R, Voss B, Rehmsmeier M., Nucleic Acids Res. 32(16), 2004
PMID: 15371549
Shape based indexing for faster search of RNA family databases.
Janssen S, Reeder J, Giegerich R., BMC Bioinformatics 9(), 2008
PMID: 18312625
RNAshapes 2.1.1 manual
AUTHOR UNKNOWN, 0
On quantitative effects of RNA shape abstraction
AUTHOR UNKNOWN, 2009
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