-
1
-
-
0041940818
-
Dynamic programming algorithms for RNA secondary structure prediction with pseudoknots
-
Akutsu, T. 2000. Dynamic programming algorithms for RNA secondary structure prediction with pseudoknots. Discr. Appl. Math. 104, 45-62.
-
(2000)
Discr. Appl. Math.
, vol.104
, pp. 45-62
-
-
Akutsu, T.1
-
2
-
-
62549128665
-
Predicting structured and stabilities for h-type pseudoknots with interhelix loop
-
Cao, S., and Chen, S.J. 2009. Predicting structured and stabilities for h-type pseudoknots with interhelix loop. RNA 15, 696-706.
-
(2009)
RNA
, vol.15
, pp. 696-706
-
-
Cao, S.1
Chen, S.J.2
-
3
-
-
2442466703
-
Classifying RNA pseuknotted structures
-
Condon, A., Davy, B., Rastegari, B., et al. 2004. Classifying RNA pseuknotted structures. Theor. Comput. Sci. 320, 35-50.
-
(2004)
Theor. Comput. Sci.
, vol.320
, pp. 35-50
-
-
Condon, A.1
Davy, B.2
Rastegari, B.3
-
4
-
-
0043285072
-
A partition function algorithm for nucleic acid secondary structure including pseudoknots
-
Dirks, N.A., and Pierce, R.M. 2003. A partition function algorithm for nucleic acid secondary structure including pseudoknots. J. Comput. Chem. 24, 1664-1677.
-
(2003)
J. Comput. Chem.
, vol.24
, pp. 1664-1677
-
-
Dirks, N.A.1
Pierce, R.M.2
-
5
-
-
6344263491
-
Boltzmann samplers for the random generation of combinatorial structures
-
Duchon, P., Flajolet, P., Louchard, G., et al. 2004. Boltzmann samplers for the random generation of combinatorial structures. Combin. Probabil. and Comput. 13, 577-625.
-
(2004)
Combin. Probabil. and Comput.
, vol.13
, pp. 577-625
-
-
Duchon, P.1
Flajolet, P.2
Louchard, G.3
-
7
-
-
0028498498
-
A calculus for the random generation of labelled combinatorial structures
-
Flajolet, P., Zimmermann, P., and Van Cutsem, B. 1994. A calculus for the random generation of labelled combinatorial structures. Theor. Comput. Sci. 132, 1-35.
-
(1994)
Theor. Comput. Sci.
, vol.132
, pp. 1-35
-
-
Flajolet, P.1
Zimmermann, P.2
Van Cutsem, B.3
-
8
-
-
0000287314
-
Combinatorics of RNA secondary structures
-
PII S0166218X98000730
-
Hofacker, I.L., Schuster, P., and Stadler, P.F. 1998. Combinatorics of RNA secondary structures. Discr. Appl. Math. 88, 207-237. (Pubitemid 128379054)
-
(1998)
Discrete Applied Mathematics
, vol.88
, Issue.1-3
, pp. 207-237
-
-
Hofacker, I.L.1
Schuster, P.2
Stadler, P.F.3
-
9
-
-
46849100443
-
Statistics of canonical RNA pseudoknot structures
-
Huang, F.W.D., and Reidys, M. 2008. Statistics of canonical RNA pseudoknot structures. J. Theor. Biol. 253, 570-578.
-
(2008)
J. Theor. Biol.
, vol.253
, pp. 570-578
-
-
Huang, F.W.D.1
Reidys, M.2
-
10
-
-
70449133438
-
RNA pseudoknot structures with arc-length 3 and stack-length
-
Jin, E.Y., and Reidys, C.M. 2010. RNA pseudoknot structures with arc-length 3 and stack-length. Discr. Appl. Math. 158, 25-36.
-
(2010)
Discr. Appl. Math.
, vol.158
, pp. 25-36
-
-
Jin, E.Y.1
Reidys, C.M.2
-
11
-
-
39449108593
-
Asymptotics of RNA shapes
-
DOI 10.1089/cmb.2006.0153
-
Lorenz, W.A., Ponty, Y., and Clote, P. 2008. Asymptotics of RNA shapes. J. Comput. Biol. 15, 31-63. (Pubitemid 351271540)
-
(2008)
Journal of Computational Biology
, vol.15
, Issue.1
, pp. 31-63
-
-
Lorenz, W.A.1
Ponty, Y.2
Clote, P.3
-
12
-
-
0033709625
-
RNA pseudoknot prediction in energy-based models
-
Lyngsø, R.B., and Pedersen, C.N. 2000. RNA pseudoknot prediction in energy-based models. J. Comput. Biol. 7, 409-428.
-
(2000)
J. Comput. Biol.
, vol.7
, pp. 409-428
-
-
Lyngsø, R.B.1
Pedersen, C.N.2
-
13
-
-
0035991766
-
Combinatorial properties of RNA secondary structures
-
Nebel, M.E. 2003. Combinatorial properties of RNA secondary structures. J. Comput. Biol. 9, 541-574.
-
(2003)
J. Comput. Biol.
, vol.9
, pp. 541-574
-
-
Nebel, M.E.1
-
14
-
-
0002213113
-
Algorithms for loop matching
-
Nussinov, R., Pieczenik, G., Griggs, J.R., et al. 1978. Algorithms for loop matching. SIAM J. Appl. Math. 35, 68-82.
-
(1978)
SIAM J. Appl. Math.
, vol.35
, pp. 68-82
-
-
Nussinov, R.1
Pieczenik, G.2
Griggs, J.R.3
-
15
-
-
33745610177
-
GenRGenS: Software for generating random genomic sequences and structures
-
DOI 10.1093/bioinformatics/btl113
-
Ponty, Y., Termier, M., and Denise, A. 2006. GenRGenS: Software for generating random genomic sequences and structures. Bioinformatics 22, 1534-1535. (Pubitemid 43985327)
-
(2006)
Bioinformatics
, vol.22
, Issue.12
, pp. 1534-1535
-
-
Ponty, Y.1
Termier, M.2
Denise, A.3
-
16
-
-
13244252326
-
Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics
-
Reeder, J., and Giegerich, R. 2004. Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics. BMC Bioinform. 5, 104.
-
(2004)
BMC Bioinform.
, vol.5
, pp. 104
-
-
Reeder, J.1
Giegerich, R.2
-
17
-
-
0033524952
-
A dynamic programming algorithm for RNA structure prediction including pseudoknots
-
DOI 10.1006/jmbi.1998.2436
-
Rivas, E., and Eddy, S.R. 1999. A dynamic programming algorithm for RNA structure prediction including pseudoknots. J. Mol. Biol. 285, 2053-2068. (Pubitemid 29078170)
-
(1999)
Journal of Molecular Biology
, vol.285
, Issue.5
, pp. 2053-2068
-
-
Rivas, E.1
Eddy, S.R.2
-
18
-
-
33749252538
-
Pseudoknots in RNA secondary structures: Representation, enumeration, and prevalence
-
DOI 10.1089/cmb.2006.13.1197
-
Rødland, E.A. 2006. Pseudoknots in RNA secondary structures: Representation, enumeration, and prevalence. J. Comput. Biol. 13, 1197-1213. (Pubitemid 44726372)
-
(2006)
Journal of Computational Biology
, vol.13
, Issue.6
, pp. 1197-1213
-
-
Rodland, E.A.1
-
20
-
-
0000693589
-
A census of planar maps
-
Tutte, W.T. 1963. A census of planar maps. Can. J. Math. 15, 249-271.
-
(1963)
Can. J. Math.
, vol.15
, pp. 249-271
-
-
Tutte, W.T.1
-
21
-
-
0001396964
-
Tree adjoining grammars for RNA structure prediction
-
PII S0304397598000905
-
Uemura, Y., Hasegawa, A., Kobayashi, S., et al. 1999. Tree adjoining grammars for RNA structures prediction. Theor. Comput. Sci. 210, 277-303. (Pubitemid 129611355)
-
(1999)
Theoretical Computer Science
, vol.210
, Issue.2
, pp. 277-303
-
-
Uemura, Y.1
Hasegawa, A.2
Kobayashi, S.3
Yokomori, T.4
-
23
-
-
18244382799
-
Enumeration of RNA structures by matrix models
-
Vernizzi, G., Orland, H., and Zee, A. 2005. Enumeration of RNA structures by matrix models. Phys. Rev. Lett. 94, 168103.
-
(2005)
Phys. Rev. Lett.
, vol.94
, pp. 168103
-
-
Vernizzi, G.1
Orland, H.2
Zee, A.3
-
24
-
-
0039805027
-
Counting rooted maps by genus. III: Nonseparable maps
-
Walsh, T.R.S., and Lehman, A.B. 1975. Counting rooted maps by genus. iii: Nonseparable maps. J. Combin. Theory Ser. B 18, 222-259.
-
(1975)
J. Combin. Theory Ser. B
, vol.18
, pp. 222-259
-
-
Walsh, T.R.S.1
Lehman, A.B.2
-
25
-
-
0001509501
-
Secondary structure of single-stranded nucleic acids
-
Waterman, M.S. 1978. Secondary structure of single-stranded nucleic acids. Adv. Math. Suppl. Studies 1, 167-212.
-
(1978)
Adv. Math. Suppl. Studies
, vol.1
, pp. 167-212
-
-
Waterman, M.S.1
-
26
-
-
0019876473
-
Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information
-
Zucker, M., and Stiegler, P. 1981. Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information. Nucleic Acids Res. 9, 133-148.
-
(1981)
Nucleic Acids Res.
, vol.9
, pp. 133-148
-
-
Zucker, M.1
Stiegler, P.2
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