A probabilistic model of the DNA conformational change

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

Volumn 4287 LNCS, Issue , 2006, Pages 274-285

  Shiozaki, Masashi ^a   Ono, Hirotaka ^a   Sadakane, Kunihiko ^a   Yamashita, Masafumi ^a  

^a KYUSHU UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BASE PAIRS; BIOCHEMICAL EXPERIMENTS; BRANCH MIGRATION; COMPUTATIONAL SIMULATION; CONFORMATIONAL CHANGE; DNA MOLECULES; DNA-COMPUTING; IN-VITRO; PROBABILISTIC MODELS; SIMULATION RESULT;

CALCULATIONS; DNA; EXPERIMENTS; GENES; GENETIC PROGRAMMING; REACTION RATES;

DNA SEQUENCES;

EID: 49949116652     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/11925903_21     Document Type: Conference Paper

References (11)

1. C. Flamm, Kinetic Folding of RNA, Dissertation, 1998.
2. C. Flamm, W. Fontana, I. L. Hofacker and P. Schuster, RNA Folding at Elementary Step Resolution, Santa Fe Institute 12-078, 1999.
3. I. L. Hofacker, The Vienna RNA Secondary Structure Server, Nucleic. Acids Res. 31 3429-31, 2003.
4. I. L. Hofacker, W. Fontana, P. F. Stadler, L. S. Bonhoeffer M. Tacker and P. Schuster, Fast Folding and comparison of RNA Secondary Structures, Monatsh. Chem. 125 167-88, 2003.
5. A. J. Hartemink and D. K. Fifford, Thermodynamic Simulation of Deoxyligonucleotide Hybridization for DNA Computation, DIMACS Series in Discrete Mathematics and Theoretical Computer Science.
6. S. Kobayashi, Strand Design for Molecular Computation, Sciences, 2003.
7. M. Shiozaki, H. Ono, K. Sadakane and M. Yamashita, Modeling DNA Conformation Change and Theoretical Analysis on the Reaction Rate, Preproceedings of the 11th International Meeting on DNA Computing (DNA11), 408, 2005.
8. M. Tacker, W. Fontana, P. F. Stadler and P. Schuster, Statistics of RNA Melting Kinetics, Eur. Biophys. J., 23:29-38, 1993.
9. H. Uejima, M. Hagiya, Analyzing Secondary Structure Transition Paths of DNA/RNA molecules, PreProceedings of the 9th International Meeting on DNA Computing (DNA9) 4731-4741, 2004.
10. M. T.Wolfinger, W. A. Svrcek-Seiler, C. Flamm, I. L. Hofacker and P. F. Stadler, Efficient Computation of RNA Folding Dynamics, J. Phys. A: Math. Gen. 37: 4731-4741, 2004.
11. M. Zucker, The Equilibrium Partition Function, http://www.bioinfo.rpi.edu/ zukerm/lectures/RNAfold-html/node3.html, 2003.