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Volumn 4463 LNBI, Issue , 2007, Pages 518-529

Delta: A toolset for the structural analysis of biological sequences on a 3D triangular lattice

Author keywords

[No Author keywords available]

Indexed keywords

ARTIFICIAL INTELLIGENCE; PROTEINS; RNA; STRUCTURAL ANALYSIS;

EID: 34547481857     PISSN: 03029743     EISSN: 16113349     Source Type: Conference Proceeding    
DOI: 10.1007/978-3-540-72031-7_47     Document Type: Conference Paper
Times cited : (3)

References (37)
  • 1
    • 0025315854 scopus 로고
    • Prediction of RNA secondary structure, including pseudoknotting, by computer simulation
    • J. P. Abrahams, M. van den Berg, E. van Batenburg, and C. Pleij, Prediction of RNA secondary structure, including pseudoknotting, by computer simulation. Nucleic Acids Research, 18(10):3035-3044, 1990.
    • (1990) Nucleic Acids Research , vol.18 , Issue.10 , pp. 3035-3044
    • Abrahams, J.P.1    van den Berg, M.2    van Batenburg, E.3    Pleij, C.4
  • 3
    • 0041940818 scopus 로고    scopus 로고
    • Dynamic programming algorithms for RNA secondary structure prediction with pseudoknots
    • T. Akutsu. Dynamic programming algorithms for RNA secondary structure prediction with pseudoknots. Discrete Applied Mathematics, 104(1-3):45-62, 2000.
    • (2000) Discrete Applied Mathematics , vol.104 , Issue.1-3 , pp. 45-62
    • Akutsu, T.1
  • 4
    • 0029025720 scopus 로고
    • 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(3):269-280, 1995.
    • (1995) Journal of Theoretical Biology , vol.174 , Issue.3 , pp. 269-280
    • van Batenburg, F.H.D.1    Gultyaev, A.P.2    Pleij, C.W.A.3
  • 8
    • 34547417924 scopus 로고    scopus 로고
    • and in Proceedings of the 30th Annual ACM Symposium on Theory of Computing (STOC'98), pages 597-603, 1998.
    • and in Proceedings of the 30th Annual ACM Symposium on Theory of Computing (STOC'98), pages 597-603, 1998.
  • 9
    • 27144471879 scopus 로고    scopus 로고
    • Approximating the 2-interval pattern problem
    • Proceedings of the 13th Annual European Symposium on Algorithms ESA'05
    • M. Crochemore, D. Hermelin, G. M. Landau, and S. Vialette. Approximating the 2-interval pattern problem. In Proceedings of the 13th Annual European Symposium on Algorithms (ESA'05), LNCS 3669, pages 426-437, 2005.
    • (2005) LNCS , vol.3669 , pp. 426-437
    • Crochemore, M.1    Hermelin, D.2    Landau, G.M.3    Vialette, S.4
  • 11
    • 0022423920 scopus 로고
    • Theory for the folding and stability of globular proteins
    • K. A. Dill. Theory for the folding and stability of globular proteins. Biochemistry, 24(6):1501-1509, 1985.
    • (1985) Biochemistry , vol.24 , Issue.6 , pp. 1501-1509
    • Dill, K.A.1
  • 12
    • 0025370815 scopus 로고
    • Dominant forces in protein folding
    • K. A. Dill. Dominant forces in protein folding. Biochemistry, 29:7133-7155, 1990.
    • (1990) Biochemistry , vol.29 , pp. 7133-7155
    • Dill, K.A.1
  • 13
    • 8344234215 scopus 로고    scopus 로고
    • How do RNA folding algorithms work?
    • S. R. Eddy. How do RNA folding algorithms work? Nature Biotechnology, 22(11):1457-1458, 2004.
    • (2004) Nature Biotechnology , vol.22 , Issue.11 , pp. 1457-1458
    • Eddy, S.R.1
  • 14
    • 0029061125 scopus 로고
    • The computer simulation of RNA folding pathways using a genetic algorithm
    • A. P. Gultyaev, F. H. D. van Batenburg, and C. W. A. Pleij. The computer simulation of RNA folding pathways using a genetic algorithm. Journal of Molecular Biology, 250(1):37-51, 1995.
    • (1995) Journal of Molecular Biology , vol.250 , Issue.1 , pp. 37-51
    • Gultyaev, A.P.1    van Batenburg, F.H.D.2    Pleij, C.W.A.3
  • 17
    • 0742286998 scopus 로고    scopus 로고
    • Predicting RNA secondary structure with arbitrary pseudoknots by maximizing the number of stacking pairs
    • S. Ieong, M.-Y. Kao, T.-W. Lam, W.-K. Sung, and S.-M. Yiu. Predicting RNA secondary structure with arbitrary pseudoknots by maximizing the number of stacking pairs. Journal of Computational Biology, 10(6):981-995, 2003.
    • (2003) Journal of Computational Biology , vol.10 , Issue.6 , pp. 981-995
    • Ieong, S.1    Kao, M.-Y.2    Lam, T.-W.3    Sung, W.-K.4    Yiu, S.-M.5
  • 18
    • 33847731501 scopus 로고    scopus 로고
    • A 2-approximation for the preceding-and-crossing structured 2-interval pattern problem
    • M. Jiang. A 2-approximation for the preceding-and-crossing structured 2-interval pattern problem. Journal of Combinatorial Optimization, Special Issue on Bioinformatics, to appear.
    • Journal of Combinatorial Optimization
    • Jiang, M.1
  • 21
    • 26444479778 scopus 로고
    • Optimization by simulated annealing
    • S. Kirkpatrick, C. D. Gelatt, Jr., and M. P. Vecchi. Optimization by simulated annealing. Science, 220(4598):671-680, 1983.
    • (1983) Science , vol.220 , Issue.4598 , pp. 671-680
    • Kirkpatrick, S.1    Gelatt Jr., C.D.2    Vecchi, M.P.3
  • 24
  • 25
    • 0032787871 scopus 로고    scopus 로고
    • Fast evaluation of interval loops in RNA secondary structure prediction
    • R. B. Lyngsø, M. Zuker, and C. N. S. Pedersen. Fast evaluation of interval loops in RNA secondary structure prediction. Bioinformatics, 15(6):440-445, 1999.
    • (1999) Bioinformatics , vol.15 , Issue.6 , pp. 440-445
    • Lyngsø, R.B.1    Zuker, M.2    Pedersen, C.N.S.3
  • 29
    • 0033524952 scopus 로고    scopus 로고
    • A dynamic programming algorithm for RNA structure prediction including pseudoknots
    • E. Rivas and S. R. Eddy. A dynamic programming algorithm for RNA structure prediction including pseudoknots. Journal of Molecular Biology, 285:2053-2068, 1999.
    • (1999) Journal of Molecular Biology , vol.285 , pp. 2053-2068
    • Rivas, E.1    Eddy, S.R.2
  • 30
    • 0347724163 scopus 로고    scopus 로고
    • An iterated loop matching approach to the prediction of RNA secondary structure with pseudoknots
    • J. Ruan, G. D. Stormo, and W. Zhang. An iterated loop matching approach to the prediction of RNA secondary structure with pseudoknots. Bioinformatics, 20(1):58-66, 2004.
    • (2004) Bioinformatics , vol.20 , Issue.1 , pp. 58-66
    • Ruan, J.1    Stormo, G.D.2    Zhang, W.3
  • 31
    • 0030774724 scopus 로고    scopus 로고
    • Predicting RNA H-type pseudoknots with the massively parallel genetic algorithm
    • B. A. Shapiro and J. C. Wu. Predicting RNA H-type pseudoknots with the massively parallel genetic algorithm Computer Applications in the Biosciences, 13(4):459-471, 1997.
    • (1997) Computer Applications in the Biosciences , vol.13 , Issue.4 , pp. 459-471
    • Shapiro, B.A.1    Wu, J.C.2
  • 32
    • 0031730497 scopus 로고    scopus 로고
    • An RNA folding method capable of identifying pseudoknots and base triples
    • J. E. Tabaska, R. B. Cary, H. N. Gabow, and G. D. Stormo. An RNA folding method capable of identifying pseudoknots and base triples. Bioinformatics, 14(8):691-699, 1998.
    • (1998) Bioinformatics , vol.14 , Issue.8 , pp. 691-699
    • Tabaska, J.E.1    Cary, R.B.2    Gabow, H.N.3    Stormo, G.D.4
  • 35
    • 0346339714 scopus 로고    scopus 로고
    • On the computational complexity of 2-interval pattern matching problems
    • S. Vialette. On the computational complexity of 2-interval pattern matching problems. Theoretical Computer Science, 312:223-249, 2004.
    • (2004) Theoretical Computer Science , vol.312 , pp. 223-249
    • Vialette, S.1
  • 37
    • 0019876473 scopus 로고
    • Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information
    • M. Zuker and P. Stiegler. Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information. Nucleic Acids Research, 9(1):133-148, 1981.
    • (1981) Nucleic Acids Research , vol.9 , Issue.1 , pp. 133-148
    • Zuker, M.1    Stiegler, P.2


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