-
1
-
-
0242438173
-
Using motion planning to map protein folding landscapes and analyze folding kinetics of known native structures
-
N. M. Amato, K. A. Dill, and G. Song. Using motion planning to map protein folding landscapes and analyze folding kinetics of known native structures. J. Comput. Biol., 10(3-4):239-256, 2003. Special issue of Int. Conf. Comput. Molecular Biology (RECOMB) 2002.
-
(2003)
J. Comput. Biol.
, vol.10
, Issue.3-4
, pp. 239-256
-
-
Amato, N.M.1
Dill, K.A.2
Song, G.3
-
2
-
-
0242438173
-
-
N. M. Amato, K. A. Dill, and G. Song. Using motion planning to map protein folding landscapes and analyze folding kinetics of known native structures. J. Comput. Biol., 10(3-4):239-256, 2003. Special issue of Int. Conf. Comput. Molecular Biology (RECOMB) 2002.
-
(2002)
Special Issue of Int. Conf. Comput. Molecular Biology (RECOMB)
-
-
-
3
-
-
0036100047
-
Using motion planning to study protein folding pathways
-
N. M. Amato and G. Song. Using motion planning to study protein folding pathways. J. Comput. Biol., 9(2):149-168, 2002. Special issue of Int. Conf. Comput. Molecular Biology (RECOMB) 2001.
-
(2002)
J. Comput. Biol.
, vol.9
, Issue.2
, pp. 149-168
-
-
Amato, N.M.1
Song, G.2
-
6
-
-
0030632073
-
Density of states, metastable states, and saddle points exploring the energy landscape of an RNA molecule
-
J. Cupal, C. Flamm, A. Renner, and P. Stadler. Density of states, metastable states, and saddle points exploring the energy landscape of an RNA molecule. Proceedings, Fifth International Conference on Intelligent Systems for Molecular Biology, pages 88-91, 1997.
-
(1997)
Proceedings, Fifth International Conference on Intelligent Systems for Molecular Biology
, pp. 88-91
-
-
Cupal, J.1
Flamm, C.2
Renner, A.3
Stadler, P.4
-
7
-
-
0039577308
-
Dynamic programming algorithm for the density of states of RNA secondry structures
-
J. Cupal, I. L. Hofacker, and P. F. Stadler. Dynamic programming algorithm for the density of states of RNA secondry structures. Computer Science and Biology 96, 96:184-186, 1996.
-
(1996)
Computer Science and Biology 96
, vol.96
, pp. 184-186
-
-
Cupal, J.1
Hofacker, I.L.2
Stadler, P.F.3
-
8
-
-
1842298212
-
From Levinthal to pathways to funnels: The new view of protein folding kinetics
-
K. A. Dill and H. S. Chan. From Levinthal to pathways to funnels: The new view of protein folding kinetics. Nat. Struct. Biol., 4:10-19, 1997.
-
(1997)
Nat. Struct. Biol.
, vol.4
, pp. 10-19
-
-
Dill, K.A.1
Chan, H.S.2
-
10
-
-
33645429016
-
Exact stochastic simulation of coupled chemical reactions
-
D. Gillespie. Exact stochastic simulation of coupled chemical reactions. JPC, 81:2340-2361, 1977.
-
(1977)
JPC
, vol.81
, pp. 2340-2361
-
-
Gillespie, D.1
-
11
-
-
2442566143
-
RNA secondary structures: A tractable model of biopolymer folding
-
I. L. Hofacker. RNA secondary structures: A tractable model of biopolymer folding. J. Theor.Biol., 212:35-46, 1998.
-
(1998)
J. Theor. Biol.
, vol.212
, pp. 35-46
-
-
Hofacker, I.L.1
-
13
-
-
0030212126
-
Probabilistic roadmaps for path planning in high-dimensional configuration spaces
-
August
-
L. Kavraki, P. Svestka, J. C. Latombe, and M. Overmars. Probabilistic roadmaps for path planning in high-dimensional configuration spaces. IEEE Trans. Robot. Automat., 12(4):566-580, August 1996.
-
(1996)
IEEE Trans. Robot. Automat.
, vol.12
, Issue.4
, pp. 566-580
-
-
Kavraki, L.1
Svestka, P.2
Latombe, J.C.3
Overmars, M.4
-
14
-
-
0003896351
-
-
Kluwer Academic Publishers, Boston, MA
-
J. C. Latombe. Robot Motion Planning. Kluwer Academic Publishers, Boston, MA, 1991.
-
(1991)
Robot Motion Planning
-
-
Latombe, J.C.1
-
15
-
-
0025264854
-
The equilibrium partition function and base pair binding probabilities for RNA secondary structure
-
J. S. McCaskill. The equilibrium partition function and base pair binding probabilities for RNA secondary structure. Biopolymers, 29:1105-1119, 1990.
-
(1990)
Biopolymers
, vol.29
, pp. 1105-1119
-
-
McCaskill, J.S.1
-
16
-
-
0002213113
-
Algorithms for loop matching
-
R. Nussinov, G. Piecznik, J. R. Griggs, and D. J. Kleitman. Algorithms for loop matching. SIAM J. Appl. Math., 35:68-82, 1972.
-
(1972)
SIAM J. Appl. Math.
, vol.35
, pp. 68-81
-
-
Nussinov, R.1
Piecznik, G.2
Griggs, J.R.3
Kleitman, D.J.4
-
17
-
-
0036074173
-
-
I. B. S. Banu Ozkan, Ken A. Dill. Fast-folding protein kinetics, hidden intermediates, and the seuential stabilization model. 11:1958-1970, 2002.
-
(2002)
Fast-folding Protein Kinetics, Hidden Intermediates, and the Seuential Stabilization Model
, vol.11
, pp. 1958-1970
-
-
Banu Ozkan, I.B.S.1
Dill, K.A.2
-
20
-
-
0035823067
-
RNA folding pathway functional intermediates: Their prediction and analysis
-
B. A. Shapiro, D. Bengali, W. Kasprzak, and J. C. Wu. RNA folding pathway functional intermediates: Their prediction and analysis. JMB, 312:27-44, 2001.
-
(2001)
JMB
, vol.312
, pp. 27-44
-
-
Shapiro, B.A.1
Bengali, D.2
Kasprzak, W.3
Wu, J.C.4
-
22
-
-
0042629768
-
A path planning-based study of protein folding with a case study of hairpin formation in protein G and L
-
G. Song, S. Thomas, K. Dill, J. Scholtz, and N. M. Amato. A path planning-based study of protein folding with a case study of hairpin formation in protein G and L. In Proc. Pacific Symposium of Biocomputing (PSB), pages 240-251, 2003.
-
(2003)
Proc. Pacific Symposium of Biocomputing (PSB)
, pp. 240-251
-
-
Song, G.1
Thomas, S.2
Dill, K.3
Scholtz, J.4
Amato, N.M.5
-
24
-
-
0028000994
-
Coaxial stacking of helices enhances binding of oligoribonucleotides and improves predictions of RNA folding
-
A. Walter, D. Turner, J. Kim, M. Lyttle, P. Muller, D. Mathews, and M. Zuker. Coaxial stacking of helices enhances binding of oligoribonucleotides and improves predictions of RNA folding. Proc. Natl. Acad. Sci. USA, 91:9218-9222, 1994.
-
(1994)
Proc. Natl. Acad. Sci. USA
, vol.91
, pp. 9218-9222
-
-
Walter, A.1
Turner, D.2
Kim, J.3
Lyttle, M.4
Muller, P.5
Mathews, D.6
Zuker, M.7
-
28
-
-
0002287019
-
Algorithms and thermodynamics for RNA secondary structure prediction: A practical guide
-
J. B. . B. Clark, editor, Kluwer Academic Publishers
-
M. Zuker, D. Mathews, and D. Turner. Algorithms and thermodynamics for RNA secondary structure prediction: A practical guide. In J. B. . B. Clark, editor, RNA Biochemistry and Biotechnology, NATO ASI Series. Kluwer Academic Publishers, 1999.
-
(1999)
RNA Biochemistry and Biotechnology, NATO ASI Series
-
-
Zuker, M.1
Mathews, D.2
Turner, D.3
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