-
1
-
-
0034522921
-
RNA secondary structure: Physical and computational aspects
-
P. G. Higgs, "RNA secondary structure: Physical and computational aspects," Quarterly Reviews for Biophysics, 33, pp. 199-253, 2000.
-
(2000)
Quarterly Reviews for Biophysics
, vol.33
, pp. 199-253
-
-
Higgs, P.G.1
-
2
-
-
0345407811
-
A Permutation based genetic algorithm for RNA secondary structure prediction
-
A. Abraham, J. Ruiz-del-Solar and M. Koppen, Eds., IOS Press, Amsterdam
-
K. C. Wiese and E. Glen, "A Permutation Based Genetic Algorithm for RNA Secondary Structure Prediction," in Frontiers in Artificial Intelligence and Applications - Soft Computing Systems, 87, A. Abraham, J. Ruiz-del-Solar and M. Koppen, Eds., IOS Press, Amsterdam, pp. 173-182, 2002.
-
(2002)
Frontiers in Artificial Intelligence and Applications - Soft Computing Systems
, vol.87
, pp. 173-182
-
-
Wiese, K.C.1
Glen, E.2
-
3
-
-
0345293275
-
A Permutation-based genetic algorithm for the RNA folding problem: A critical look at selection strategies, crossover operators, and representation issues
-
G. Fogel and D. Corne, Eds
-
K. C. Wiese and E. Glen, "A Permutation-Based Genetic Algorithm for the RNA Folding Problem: A Critical Look at Selection Strategies, Crossover Operators, and Representation Issues", BioSystems - Special Issue on Computational Intelligence in Bioinformatics, G. Fogel and D. Corne, Eds., pp. 29-41, 2003.
-
(2003)
BioSystems - Special Issue on Computational Intelligence in Bioinformatics
, pp. 29-41
-
-
Wiese, K.C.1
Glen, E.2
-
5
-
-
0030156432
-
NMR investigations of RNA structure
-
G. Varani, F. Aboul-ela, and F. H.-T. Allain, "NMR Investigations of RNA Structure," Progress in NMR Spectroscopy, 29, pp. 51-127, 1996.
-
(1996)
Progress in NMR Spectroscopy
, vol.29
, pp. 51-127
-
-
Varani, G.1
Aboul-Ela, F.2
Allain, F.H.-T.3
-
8
-
-
0029040124
-
A genetic algorithm to search for optimal and suboptimal RNA secondary structures
-
G. Benedetti and S. Morosetti, "A genetic algorithm to search for optimal and suboptimal RNA secondary structures," Biophysical Chemistry, 55, pp. 253-259, 1995.
-
(1995)
Biophysical Chemistry
, vol.55
, pp. 253-259
-
-
Benedetti, G.1
Morosetti, S.2
-
9
-
-
0028547954
-
A massively-parallel genetic algorithm for RNA secondary structure prediction
-
B. A. Shapiro, and J. Navetta, "A massively-parallel genetic algorithm for RNA secondary structure prediction," The Journal of Supercomputing, 8, pp. 195-207, 1995.
-
(1995)
The Journal of Supercomputing
, vol.8
, pp. 195-207
-
-
Shapiro, B.A.1
Navetta, J.2
-
10
-
-
0029966818
-
An annealing mutation operator in the genetic algorithms for RNA folding
-
B. A. Shapiro and J.C. Wu, "An annealing mutation operator in the genetic algorithms for RNA folding," Computer Applications in the Biosciences, 12, pp. 171-180, 1996.
-
(1996)
Computer Applications in the Biosciences
, vol.12
, pp. 171-180
-
-
Shapiro, B.A.1
Wu, J.C.2
-
11
-
-
0029025720
-
An APL-programmed genetic algorithm for the prediction of RNA secondary structure
-
F. H. D. van Batenburg, A. P. Gultyaev, and C. W. A. Pleij, "An APL-programmed genetic algorithm for the prediction of RNA secondary structure," Journal of Theoretical Biology, 174, pp. 269-280, 1995.
-
(1995)
Journal of Theoretical Biology
, vol.174
, pp. 269-280
-
-
Van Batenburg, F.H.D.1
Gultyaev, A.P.2
Pleij, C.W.A.3
-
12
-
-
0029061125
-
The computer simulation of RNA folding pathways using a genetic algorithm
-
F. H. D. van Batenburg, A. P. Gultyaev, and C. W. A. Pleij, "The computer simulation of RNA folding pathways using a genetic algorithm," Journal of Molecular Biology, 250, pp. 37-51, 1995.
-
(1995)
Journal of Molecular Biology
, vol.250
, pp. 37-51
-
-
Van Batenburg, F.H.D.1
Gultyaev, A.P.2
Pleij, C.W.A.3
-
13
-
-
0004286966
-
An updated recursive algorithm for RNA secondary structure prediction with improved free-energy parameters
-
N. B. Leontis and J. SantaLucia Jr., Eds., American Chemical Society
-
D. H. Mathews, T. C. Andre, J. Kim, D. H. Turner, and M. Zuker, "An Updated Recursive Algorithm for RNA Secondary Structure Prediction with Improved Free-Energy Parameters," in Molecular Modeling of Nucleic Acids, N. B. Leontis and J. SantaLucia Jr., Eds., American Chemical Society, 1998, pp. 246-257.
-
(1998)
Molecular Modeling of Nucleic Acids
, pp. 246-257
-
-
Mathews, D.H.1
Andre, T.C.2
Kim, J.3
Turner, D.H.4
Zuker, M.5
-
14
-
-
4344700518
-
-
Laboratoire de Biologie Informatique et Théorique, Université de Montréal, Montréal, Canada, (personal communication)
-
F. Major, Laboratoire de Biologie Informatique et Théorique, Université de Montréal, Montréal, Canada, (personal communication), 2003.
-
(2003)
-
-
Major, F.1
-
15
-
-
0033591465
-
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure
-
D. H. Mathews, J. Sabina, M. Zuker and D. H. Turner "Expanded Sequence Dependence of Thermodynamic Parameters Improves Prediction of RNA Secondary Structure" Journal of Molecular Biology, 288, 911-940, 1999.
-
(1999)
Journal of Molecular Biology
, vol.288
, pp. 911-940
-
-
Mathews, D.H.1
Sabina, J.2
Zuker, M.3
Turner, D.H.4
-
16
-
-
0023040885
-
Stability of XGCGCp, GCGCYp, and XGCGCYp helixes: An empirical estimate of the energetics of hydrogen bonds in nucleic acids
-
S. M. Freier, N. Sugimoto, A. Sinclair, D. Alkema, T. Neilson, R. Kierzek, M. H. Caruthers, and D. H. Turner, "Stability of XGCGCp, GCGCYp, and XGCGCYp helixes: an empirical estimate of the energetics of hydrogen bonds in nucleic acids," Biochemistry, 25, 3214-3219, 1986.
-
(1986)
Biochemistry
, vol.25
, pp. 3214-3219
-
-
Freier, S.M.1
Sugimoto, N.2
Sinclair, A.3
Alkema, D.4
Neilson, T.5
Kierzek, R.6
Caruthers, M.H.7
Turner, D.H.8
-
17
-
-
0016189342
-
Stability of ribonucleic acid double-stranded helices
-
P. N. Borer, B. Dengler, I. Tinoco Jr., O. C. Uhlenbeck, "Stability of Ribonucleic acid Double-stranded Helices," Journal Of Molecular Biology, 86, 843-853, 1974.
-
(1974)
Journal of Molecular Biology
, vol.86
, pp. 843-853
-
-
Borer, P.N.1
Dengler, B.2
Tinoco Jr., I.3
Uhlenbeck, O.C.4
-
18
-
-
0000075467
-
Improved free-energy parameters for predictions of RNA duplex stability
-
S. M. Freier, R. Kierzek, J. A. Jaeger, N. Sugimoto, M. H. Caruthers, T. Neilson, and D. H. Turner, "Improved free-energy parameters for predictions of RNA duplex stability," Proceedings of the National Academy of Sciences of the United States of America, 83, pp. 9373-9377, 1986.
-
(1986)
Proceedings of the National Academy of Sciences of the United States of America
, vol.83
, pp. 9373-9377
-
-
Freier, S.M.1
Kierzek, R.2
Jaeger, J.A.3
Sugimoto, N.4
Caruthers, M.H.5
Neilson, T.6
Turner, D.H.7
-
19
-
-
0029100233
-
Predicting thermodynamic properties of RNA
-
M. J. Serra, and D. H. Turner, "Predicting thermodynamic properties of RNA," Methods in Enzymology, 259, pp. 242-261, 1995.
-
(1995)
Methods in Enzymology
, vol.259
, pp. 242-261
-
-
Serra, M.J.1
Turner, D.H.2
-
20
-
-
0032552882
-
Thermodynamic Parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs
-
T. Xia, J. SantaLucia Jr, M. E. Burkard, R. Kierzek, S. J. Schroeder, X. Jiao, C. Cox, and D. H. Turner, "Thermodynamic Parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs" Biochemistry, 37, 14719-14735, 1998.
-
(1998)
Biochemistry
, vol.37
, pp. 14719-14735
-
-
Xia, T.1
SantaLucia Jr., J.2
Burkard, M.E.3
Kierzek, R.4
Schroeder, S.J.5
Jiao, X.6
Cox, C.7
Turner, D.H.8
-
21
-
-
0023040892
-
Free-energy contributions of GU and other terminal mismatches to helix stability
-
S. M. Freier, R. Kierzek, M. H. Caruthers, T. Neilson, and D. H. Turner, "Free-energy contributions of GU and other terminal mismatches to helix stability" Biochemistry, 25, 3209-3213, 1986.
-
(1986)
Biochemistry
, vol.25
, pp. 3209-3213
-
-
Freier, S.M.1
Kierzek, R.2
Caruthers, M.H.3
Neilson, T.4
Turner, D.H.5
-
22
-
-
0023055766
-
Energetics of internal GU mismatches in ribooligonucleotide helixes
-
N. Sugimoto, R. Kierzek, S. M. Freier, and D. H. Turner, "Energetics of internal GU mismatches in ribooligonucleotide helixes, " Biochemistry, 25, pp. 5755-5759, 1986.
-
(1986)
Biochemistry
, vol.25
, pp. 5755-5759
-
-
Sugimoto, N.1
Kierzek, R.2
Freier, S.M.3
Turner, D.H.4
-
23
-
-
0026335264
-
Nearest-neighbor parameters for GU mismatches
-
L. He, R. Kierzek, J. SantaLucia Jr, A. E. Walter, and D. H. Turner, "Nearest-neighbor parameters for GU mismatches," Biochemistry, 30, pp. 11124-11132, 1991.
-
(1991)
Biochemistry
, vol.30
, pp. 11124-11132
-
-
He, L.1
Kierzek, R.2
SantaLucia Jr., J.3
Walter, A.E.4
Turner, D.H.5
-
24
-
-
0028917227
-
A periodic table of symmetric tandem mismatches in RNA
-
M. Wu, J. A. McDowell, and D. H. Turner, "A periodic table of symmetric tandem mismatches in RNA," Biochemistry, 34, pp. 3204-3211, 1995.
-
(1995)
Biochemistry
, vol.34
, pp. 3204-3211
-
-
Wu, M.1
McDowell, J.A.2
Turner, D.H.3
-
25
-
-
0030815643
-
Thermodynamics of nonsymmetric tandem mismatches adjacent to GC base pairs in RNA
-
T. Xia, J. A. McDowell, and D. H. Turner, "Thermodynamics of nonsymmetric tandem mismatches adjacent to GC base pairs in RNA" Biochemistry, 36, 12486-12487, 1997.
-
(1997)
Biochemistry
, vol.36
, pp. 12486-12487
-
-
Xia, T.1
McDowell, J.A.2
Turner, D.H.3
-
27
-
-
0035479118
-
Keep-best reproduction: A local family competition selection strategy and the environment it flourishes in
-
K. C. Wiese and S. D. Goodwin, "Keep-Best Reproduction: A Local Family Competition Selection Strategy and the Environment it Flourishes in," Constraints, 6, pp. 399-422, 2001.
-
(2001)
Constraints
, vol.6
, pp. 399-422
-
-
Wiese, K.C.1
Goodwin, S.D.2
-
28
-
-
2942571539
-
The comparative RNA web (CRW) site: An online database of comparative sequence and structure information for ribosomal, intron, and other RNAs
-
Cannone J.J., Subramanian S., Schnare M.N., Collett J.R., D'Souza L.M., Du Y., Feng B., Lin N., Madabusi L.V., Muller K.M., Pande N., Shang Z., Yu N., and Gutell R.R., "The Comparative RNA Web (CRW) Site: An Online Database of Comparative Sequence and Structure Information for Ribosomal, Intron, and other RNAs," BioMed Central Bioinformatics, 3, 2002. Website available at: http://www.rna.icmb.utexas.edu/
-
(2002)
BioMed Central Bioinformatics
, vol.3
-
-
Cannone, J.J.1
Subramanian, S.2
Schnare, M.N.3
Collett, J.R.4
D'Souza, L.M.5
Du, Y.6
Feng, B.7
Lin, N.8
Madabusi, L.V.9
Muller, K.M.10
Pande, N.11
Shang, Z.12
Yu, N.13
Gutell, R.R.14
-
29
-
-
4344650265
-
-
Accessed: October 22nd, 2003
-
The openMosix Project, http://openmosix.sourceforge.net/ Accessed: October 22nd, 2003.
-
The OpenMosix Project
-
-
-
30
-
-
0345274721
-
Pseudoviewer: Automatic visualization of RNA pseudoknots
-
K. Han, Y. Lee, and W. Kim, "PseudoViewer: automatic visualization of RNA pseudoknots", Bioinformatics, 18, pp. S321-S328, 2002.
-
(2002)
Bioinformatics
, vol.18
-
-
Han, K.1
Lee, Y.2
Kim, W.3
-
33
-
-
0001900725
-
A comparison of genetic sequencing operators
-
R. Belew and L. Booker, Eds. Los Altos: Morgan Kaufmann Puplishers
-
T. Starkweather, S. McDaniel, C. Whitley, K. Mathias, and D. Whitley, "A comparison of genetic sequencing operators," in Proceedings of the Fourth International Conference on Genetic Algorithms, R. Belew and L. Booker, Eds. Los Altos: Morgan Kaufmann Puplishers, 1991, pp. 69-76.
-
(1991)
Proceedings of the Fourth International Conference on Genetic Algorithms
, pp. 69-76
-
-
Starkweather, T.1
McDaniel, S.2
Whitley, C.3
Mathias, K.4
Whitley, D.5
-
34
-
-
0001164172
-
Alleles, loci, and the traveling salesman problem
-
D.E. Goldberg, R. Lingle, "Alleles, Loci, and the Traveling Salesman Problem," in Proceedings of the International Conference on Genetic Algorithms and their Applications, 1985.
-
(1985)
Proceedings of the International Conference on Genetic Algorithms and Their Applications
-
-
Goldberg, D.E.1
Lingle, R.2
-
35
-
-
0344113906
-
ASERC - A genetic sequencing operator for asymmetric permutation problems
-
H. Hamilton and Q. Yang, Eds
-
K. C. Wiese, S. D. Goodwin, and S. Nagarajan, "ASERC - A Genetic Sequencing Operator for Asymmetric Permutation Problems," in Lecture Notes in Artificial Intelligence - Advances in Artificial Intelligence, 1822, H. Hamilton and Q. Yang, Eds., 2000, pp. 201-213.
-
(2000)
Lecture Notes in Artificial Intelligence - Advances in Artificial Intelligence
, vol.1822
, pp. 201-213
-
-
Wiese, K.C.1
Goodwin, S.D.2
Nagarajan, S.3
-
36
-
-
0001395987
-
The travelling salesman and sequence scheduling: Quality solutions using genetic edge recombination
-
L. Davis, Ed., London: International Thomson Computer Press
-
D. Whitley, T. Starkweather, and D. Shaner, "The travelling salesman and sequence scheduling: quality solutions using genetic edge recombination," in Handbook of Genetic Algorithms, L. Davis, Ed., London: International Thomson Computer Press, 1996, pp. 350-372.
-
(1996)
Handbook of Genetic Algorithms
, pp. 350-372
-
-
Whitley, D.1
Starkweather, T.2
Shaner, D.3
-
37
-
-
0003871635
-
-
Ph.D. dissertation, University of Michigan, Ann Arbor, MI
-
K. De long, "An Analysis of the Behaviour of a Class of Genetic Adaptive Systems", Ph.D. dissertation, University of Michigan, Ann Arbor, MI, 1975.
-
(1975)
An Analysis of the Behaviour of a Class of Genetic Adaptive Systems
-
-
De Long, K.1
-
38
-
-
0023040505
-
Polymer-supported RNA synthesis and its application to test the nearest-neighbor model for duplex stability
-
R. Kierzek, M. H. Caruthers, C. E. Longfellow, D. Swinton, D. H. Turner, and S. M. Freier, "Polymer-supported RNA synthesis and its application to test the nearest-neighbor model for duplex stability," Biochemistry, 25, 7840-7846, 1986.
-
(1986)
Biochemistry
, vol.25
, pp. 7840-7846
-
-
Kierzek, R.1
Caruthers, M.H.2
Longfellow, C.E.3
Swinton, D.4
Turner, D.H.5
Freier, S.M.6
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