Random generation of RNA secondary structures according to native distributions
Nebel M, Scheid A, Weinberg F (2011)
Algorithms for Molecular Biology 6(1): 24.
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Autor*in
Nebel, MarkusUniBi;
Scheid, Anika;
Weinberg, Frank
Einrichtung
Erscheinungsjahr
2011
Zeitschriftentitel
Algorithms for Molecular Biology
Band
6
Ausgabe
1
Art.-Nr.
24
ISSN
1748-7188
Page URI
https://pub.uni-bielefeld.de/record/2910017
Zitieren
Nebel M, Scheid A, Weinberg F. Random generation of RNA secondary structures according to native distributions. Algorithms for Molecular Biology. 2011;6(1): 24.
Nebel, M., Scheid, A., & Weinberg, F. (2011). Random generation of RNA secondary structures according to native distributions. Algorithms for Molecular Biology, 6(1), 24. doi:10.1186/1748-7188-6-24
Nebel, Markus, Scheid, Anika, and Weinberg, Frank. 2011. “Random generation of RNA secondary structures according to native distributions”. Algorithms for Molecular Biology 6 (1): 24.
Nebel, M., Scheid, A., and Weinberg, F. (2011). Random generation of RNA secondary structures according to native distributions. Algorithms for Molecular Biology 6:24.
Nebel, M., Scheid, A., & Weinberg, F., 2011. Random generation of RNA secondary structures according to native distributions. Algorithms for Molecular Biology, 6(1): 24.
M. Nebel, A. Scheid, and F. Weinberg, “Random generation of RNA secondary structures according to native distributions”, Algorithms for Molecular Biology, vol. 6, 2011, : 24.
Nebel, M., Scheid, A., Weinberg, F.: Random generation of RNA secondary structures according to native distributions. Algorithms for Molecular Biology. 6, : 24 (2011).
Nebel, Markus, Scheid, Anika, and Weinberg, Frank. “Random generation of RNA secondary structures according to native distributions”. Algorithms for Molecular Biology 6.1 (2011): 24.
Daten bereitgestellt von European Bioinformatics Institute (EBI)
2 Zitationen in Europe PMC
Daten bereitgestellt von Europe PubMed Central.
An Efficient Dual Sampling Algorithm with Hamming Distance Filtration.
Barrett C, He Q, Huang FW, Reidys CM., J Comput Biol 25(11), 2018
PMID: 30133328
Barrett C, He Q, Huang FW, Reidys CM., J Comput Biol 25(11), 2018
PMID: 30133328
Analysis of the free energy in a stochastic RNA secondary structure model.
Nebel ME, Scheid A., IEEE/ACM Trans Comput Biol Bioinform 8(6), 2011
PMID: 21116040
Nebel ME, Scheid A., IEEE/ACM Trans Comput Biol Bioinform 8(6), 2011
PMID: 21116040
49 References
Daten bereitgestellt von Europe PubMed Central.
Boltzmann Sampling of Unlabelled Structures
AUTHOR UNKNOWN, 2007
AUTHOR UNKNOWN, 2007
Significance of nucleotide sequence alignments: a method for random sequence permutation that preserves dinucleotide and codon usage
AUTHOR UNKNOWN, 1985
AUTHOR UNKNOWN, 1985
Random Generation of structured genomic sequences
AUTHOR UNKNOWN, 2003
AUTHOR UNKNOWN, 2003
Secondary Structure of Single-Stranded Nucleic Acids
AUTHOR UNKNOWN, 1978
AUTHOR UNKNOWN, 1978
A statistical sampling algorithm for RNA secondary structure prediction.
Ding Y, Lawrence CE., Nucleic Acids Res. 31(24), 2003
PMID: 14654704
Ding Y, Lawrence CE., Nucleic Acids Res. 31(24), 2003
PMID: 14654704
Efficient sampling of RNA secondary structures from the Boltzmann ensemble of low-energy: the boustrophedon method.
Ponty Y., J Math Biol 56(1-2), 2007
PMID: 17932676
Ponty Y., J Math Biol 56(1-2), 2007
PMID: 17932676
Benchmarking RNA secondary structures comparison algorithms
AUTHOR UNKNOWN, 2008
AUTHOR UNKNOWN, 2008
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
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
Zuker M., Science 244(4900), 1989
PMID: 2468181
Mfold web server for nucleic acid folding and hybridization prediction.
Zuker M., Nucleic Acids Res. 31(13), 2003
PMID: 12824337
Zuker M., Nucleic Acids Res. 31(13), 2003
PMID: 12824337
Evaluation of several lightweight stochastic context-free grammars for RNA secondary structure prediction.
Dowell RD, Eddy SR., BMC Bioinformatics 5(), 2004
PMID: 15180907
Dowell RD, Eddy SR., BMC Bioinformatics 5(), 2004
PMID: 15180907
RNA secondary structure prediction using stochastic context-free grammars and evolutionary history.
Knudsen B, Hein J., Bioinformatics 15(6), 1999
PMID: 10383470
Knudsen B, Hein J., Bioinformatics 15(6), 1999
PMID: 10383470
Pfold: RNA secondary structure prediction using stochastic context-free grammars.
Knudsen B, Hein J., Nucleic Acids Res. 31(13), 2003
PMID: 12824339
Knudsen B, Hein J., Nucleic Acids Res. 31(13), 2003
PMID: 12824339
A comparative method for finding and folding RNA secondary structures within protein-coding regions.
Pedersen JS, Meyer IM, Forsberg R, Simmonds P, Hein J., Nucleic Acids Res. 32(16), 2004
PMID: 15448187
Pedersen JS, Meyer IM, Forsberg R, Simmonds P, Hein J., Nucleic Acids Res. 32(16), 2004
PMID: 15448187
An evolutionary model for protein-coding regions with conserved RNA structure.
Pedersen JS, Forsberg R, Meyer IM, Hein J., Mol. Biol. Evol. 21(10), 2004
PMID: 15229291
Pedersen JS, Forsberg R, Meyer IM, Hein J., Mol. Biol. Evol. 21(10), 2004
PMID: 15229291
TRANSAT-- method for detecting the conserved helices of functional RNA structures, including transient, pseudo-knotted and alternative structures.
Wiebe NJ, Meyer IM., PLoS Comput. Biol. 6(6), 2010
PMID: 20589081
Wiebe NJ, Meyer IM., PLoS Comput. Biol. 6(6), 2010
PMID: 20589081
In silico sequence evolution with site-specific interactions along phylogenetic trees.
Gesell T, von Haeseler A., Bioinformatics 22(6), 2005
PMID: 16332711
Gesell T, von Haeseler A., Bioinformatics 22(6), 2005
PMID: 16332711
AUTHOR UNKNOWN, 2010
Analysis of the Free Energy in a Stochastic RNA Secondary Structure Model
AUTHOR UNKNOWN, 2010
AUTHOR UNKNOWN, 2010
Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs.
Xia T, SantaLucia J Jr, Burkard ME, Kierzek R, Schroeder SJ, Jiao X, Cox C, Turner DH., Biochemistry 37(42), 1998
PMID: 9778347
Xia T, SantaLucia J Jr, Burkard ME, Kierzek R, Schroeder SJ, Jiao X, Cox C, Turner DH., Biochemistry 37(42), 1998
PMID: 9778347
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure.
Mathews DH, Sabina J, Zuker M, Turner DH., J. Mol. Biol. 288(5), 1999
PMID: 10329189
Mathews DH, Sabina J, Zuker M, Turner DH., J. Mol. Biol. 288(5), 1999
PMID: 10329189
AUTHOR UNKNOWN, 1978
A Calculus for the Random Generation of Combinatorial Structures
AUTHOR UNKNOWN, 1994
AUTHOR UNKNOWN, 1994
Boltzmann Samplers for the Random Generation of Combinatorial Structures
AUTHOR UNKNOWN, 2004
AUTHOR UNKNOWN, 2004
AUTHOR UNKNOWN, 2009
AUTHOR UNKNOWN, 1978
On some new sequences generalizing the Catalan and Motzkin numbers
AUTHOR UNKNOWN, 1978
AUTHOR UNKNOWN, 1978
Enumeration of RNA Secondary Structures by Complexity
AUTHOR UNKNOWN, 1985
AUTHOR UNKNOWN, 1985
Combinatorial properties of RNA secondary structures.
Nebel ME., J. Comput. Biol. 9(3), 2002
PMID: 12162892
Nebel ME., J. Comput. Biol. 9(3), 2002
PMID: 12162892
Combinatorics of RNA secondary structures
AUTHOR UNKNOWN, 1998
AUTHOR UNKNOWN, 1998
Investigation of the Bernoulli model for RNA secondary structures.
Nebel ME., Bull. Math. Biol. 66(5), 2004
PMID: 15294413
Nebel ME., Bull. Math. Biol. 66(5), 2004
PMID: 15294413
RNA Secondary Structures and their Prediction
AUTHOR UNKNOWN, 1984
AUTHOR UNKNOWN, 1984
AUTHOR UNKNOWN, 2002
Identifying Good Predictions of RNA Secondary Structure
AUTHOR UNKNOWN, 2004
AUTHOR UNKNOWN, 2004
Ordered Generation of Classes of Combinatorial Structures
AUTHOR UNKNOWN, 2005
AUTHOR UNKNOWN, 2005
Stochastic Grammars and Languages
AUTHOR UNKNOWN, 1972
AUTHOR UNKNOWN, 1972
On Stochastic Context-Free Languages
AUTHOR UNKNOWN, 1971
AUTHOR UNKNOWN, 1971
Stochastic context-free grammars for tRNA modeling.
Sakakibara Y, Brown M, Hughey R, Mian IS, Sjolander K, Underwood RC, Haussler D., Nucleic Acids Res. 22(23), 1994
PMID: 7800507
Sakakibara Y, Brown M, Hughey R, Mian IS, Sjolander K, Underwood RC, Haussler D., Nucleic Acids Res. 22(23), 1994
PMID: 7800507
Ranking and unranking of lexicographically ordered words: an average-case analysis
AUTHOR UNKNOWN, 1998
AUTHOR UNKNOWN, 1998
Extending Stochastic Context-Free Grammars for an Application in Bioin-formatics
AUTHOR UNKNOWN, 2010
AUTHOR UNKNOWN, 2010
Query-dependent banding (QDB) for faster RNA similarity searches.
Nawrocki EP, Eddy SR., PLoS Comput. Biol. 3(3), 2007
PMID: 17397253
Nawrocki EP, Eddy SR., PLoS Comput. Biol. 3(3), 2007
PMID: 17397253
A generic approach for the unranking of labeled combinatorial classes. Random Struct
AUTHOR UNKNOWN, 2001
AUTHOR UNKNOWN, 2001
The European Large Subunit Ribosomal RNA Database.
Wuyts J, De Rijk P, Van de Peer Y, Winkelmans T, De Wachter R., Nucleic Acids Res. 29(1), 2001
PMID: 11125083
Wuyts J, De Rijk P, Van de Peer Y, Winkelmans T, De Wachter R., Nucleic Acids Res. 29(1), 2001
PMID: 11125083
The European database on small subunit ribosomal RNA.
Wuyts J, Van de Peer Y, Winkelmans T, De Wachter R., Nucleic Acids Res. 30(1), 2002
PMID: 11752288
Wuyts J, Van de Peer Y, Winkelmans T, De Wachter R., Nucleic Acids Res. 30(1), 2002
PMID: 11752288
AUTHOR UNKNOWN, 1978
On a test of whether one of two random variables is stochastically larger than the other
AUTHOR UNKNOWN, 1947
AUTHOR UNKNOWN, 1947
Individual Comparisons by Ranking Methods
AUTHOR UNKNOWN, 1945
AUTHOR UNKNOWN, 1945
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