메뉴 건너뛰기




Volumn 174, Issue 3, 1995, Pages 269-280

An APL-programmed genetic algorithm for the prediction of RNA secondary structure

Author keywords

[No Author keywords available]

Indexed keywords

RNA;

EID: 0029025720     PISSN: 00225193     EISSN: None     Source Type: Journal    
DOI: 10.1006/jtbi.1995.0098     Document Type: Article
Times cited : (170)

References (38)
  • 1
    • 0025315854 scopus 로고
    • Prediction of RNA secondary structure, including pseudoknotting, by computer simulation
    • Abrahams, J. P., van de Berg, M., van Batenburg, E. & Pleij, C. (1990). Prediction of RNA secondary structure, including pseudoknotting, by computer simulation. Nucleic Acids Res. 18, 3035-3044.
    • (1990) Nucleic Acids Res , vol.18 , pp. 3035-3044
    • Abrahams, J.P.1    Van De Berg, M.2    Van Batenburg, E.3    Pleij, C.4
  • 2
    • 0013158006 scopus 로고
    • Genetic algorithms
    • Alfonseca, M. (1991). Genetic algorithms. Conf. Porc. APL91, p. 1-6.
    • (1991) Conf. Porc , pp. 1-6
    • Alfonseca, M.1
  • 4
    • 0026328213 scopus 로고
    • Structural similarities between the RNAs of two satellites of tobacco necrosis virus
    • Danthinne, X., Seurinck, J., van Montagu, M., Pleij, C. W. A. & van Emmelo, J. (1991). Structural similarities between the RNAs of two satellites of tobacco necrosis virus. Virology 185, 605-614.
    • (1991) Virology , vol.185 , pp. 605-614
    • Danthinne, X.1    Seurinck, J.2    Van Montagu, M.3    Pleij, C.W.A.4    Van Emmelo, J.5
  • 7
    • 0027640931 scopus 로고
    • Genetic algorithms: Principles of natural selection applied to computation
    • Forrest, S. (1993). Genetic algorithms: principles of natural selection applied to computation. Science 261, 872-878.
    • (1993) Science , vol.261 , pp. 872-878
    • Forrest, S.1
  • 11
    • 0025878210 scopus 로고
    • The computer simulation of RNA folding involving pseudoknot formation
    • Gultyaev, A. P. (1991). The computer simulation of RNA folding involving pseudoknot formation. Nucleic Acids Res. 19, 2489-2494.
    • (1991) Nucleic Acids Res , vol.19 , pp. 2489-2494
    • Gultyaev, A.P.1
  • 12
    • 0029061125 scopus 로고
    • The computer simulation of RNA folding pathways using a genetic algorithm
    • press
    • Gultyaev, A. P., van Batenburg, F. H. D. & Pleij, C. W. A. (1995). The computer simulation of RNA folding pathways using a genetic algorithm. J. molec. Biol., in press.
    • (1995) J. Molec. Biol
    • Gultyaev, A.P.1    Van Batenburg, F.H.D.2    Pleij, C.W.A.3
  • 13
    • 0002304830 scopus 로고
    • RNA secondary structure: A comparison of real and random sequences
    • Higgs, P. G. (1993). RNA secondary structure: a comparison of real and random sequences. J. Phys. Inst. Fr. 3, 43-59.
    • (1993) J. Phys. Inst. Fr , vol.3 , pp. 43-59
    • Higgs, P.G.1
  • 15
    • 0000746883 scopus 로고
    • Escaping brittleness: The possibilities of general-purpose learning algorithms applied to parallel rule-based systems
    • Michalski, R. S., Carbonell, J. G. & Mitchell, T. M., eds) Morgan Kaufman Inc.
    • Holland, J. H. (1986). Escaping brittleness: the possibilities of general-purpose learning algorithms applied to parallel rule-based systems. In: Machine learning: An IA Approach, Vol. 2. (Michalski, R. S., Carbonell, J. G. & Mitchell, T. M., eds) Morgan Kaufman Inc.
    • (1986) Machine Learning: An IA Approach , vol.2
    • Holland, J.H.1
  • 16
    • 0002449925 scopus 로고
    • Genetic algorithms
    • Holland, J. H. (1992). Genetic algorithms. Sci. Am. 7, 44-50.
    • (1992) Sci. Am , vol.7 , pp. 44-50
    • Holland, J.H.1
  • 18
    • 0021759989 scopus 로고
    • Some simple computational methods to improve the folding of large RNAs
    • Jacobson, A. B., Good, L., Simonetti, J. & Zuker, M. (1984). Some simple computational methods to improve the folding of large RNAs. Nucleic Acids Res. 12, 45-51.
    • (1984) Nucleic Acids Res , vol.12 , pp. 45-51
    • Jacobson, A.B.1    Good, L.2    Simonetti, J.3    Zuker, M.4
  • 19
    • 0027375727 scopus 로고
    • Structural analysis by energy dot plot of a large m RNA
    • Jacobson, A. B. & Zuker, M. (1993). Structural analysis by energy dot plot of a large m RNA. J. molec. Biol. 233, 261-269.
    • (1993) J. Molec. Biol , vol.233 , pp. 261-269
    • Jacobson, A.B.1    Zuker, M.2
  • 20
  • 21
    • 0027165550 scopus 로고
    • Determination of RNA structure and thermodynamics
    • Jaeger, J. A., Santa Lucia, J. & Tinoco, I. (1993). Determination of RNA structure and thermodynamics. A. Rev. Biochem. 62, 255-287.
    • (1993) A. Rev. Biochem , vol.62 , pp. 255-287
    • Jaeger, J.A.1    Santalucia, J.2    Tinoco, I.3
  • 22
    • 0021760032 scopus 로고
    • An RNA folding rule
    • Martinez, H. M. (1984). An RNA folding rule. Nucleic Acids Res. 12, 323-334.
    • (1984) Nucleic Acids Res , vol.12 , pp. 323-334
    • Martinez, H.M.1
  • 23
    • 0025264854 scopus 로고
    • The equilibrium partition function and base pair binding probabilities for RNA secondary structure
    • McCaskill, J. S. (1990). The equilibrium partition function and base pair binding probabilities for RNA secondary structure. Biopolymers 29, 1105-1119.
    • (1990) Biopolymers , vol.29 , pp. 1105-1119
    • McCaskill, J.S.1
  • 24
    • 0021823907 scopus 로고
    • Akinetic approach to the prediction of RNA secondary structures
    • Mironov, A. A., Dyakonova, L.P. & Kister, A. E. (1985). Akinetic approach to the prediction of RNA secondary structures. J. Biomolec. Struct. Dyn. 2, 953-962.
    • (1985) J. Biomolec. Struct. Dyn , vol.2 , pp. 953-962
    • Mironov, A.A.1    Dyakonova, L.P.2    Kister, A.E.3
  • 25
    • 0021158357 scopus 로고
    • Structure of ribosomal RNA
    • Noller, H. F. (1984). Structure of ribosomal RNA. A. Rev. Biochem. 53, 119-162.
    • (1984) A. Rev. Biochem , vol.53 , pp. 119-162
    • Noller, H.F.1
  • 26
    • 0019082587 scopus 로고
    • Fast algorithm for predicting the secondary structure of single-stranded RNA
    • Nussinov, R. & Jacobson, A. B. (1980). Fast algorithm for predicting the secondary structure of single-stranded RNA. Proc. natn. Acad. Sci. U.S.A. 77, 6309-6313.
    • (1980) Proc. Natn. Acad. Sci. U.S.A , vol.77 , pp. 6309-6313
    • Nussinov, R.1    Jacobson, A.B.2
  • 27
    • 0021756728 scopus 로고
    • Structural and combinatorial constraints on base pairings in large nucleotide sequences
    • Nussinov, R. & Pieczenik, G. (1984). Structural and combinatorial constraints on base pairings in large nucleotide sequences. J. theor. Biol. 106, 244-259.
    • (1984) J. Theor. Biol , vol.106 , pp. 244-259
    • Nussinov, R.1    Pieczenik, G.2
  • 28
    • 0019779738 scopus 로고
    • Sequential folding ofamessenger RNA molecule
    • Nussinov, R. &Tinoco, I. (1981). Sequential folding ofamessenger RNA molecule. J. molec. Biol. 151, 519-533.
    • (1981) J. Molec. Biol , vol.151 , pp. 519-533
    • Nussinov, R.1    Tinoco, I.2
  • 29
    • 0021760007 scopus 로고
    • An energy model which predicts the correct folding of both the t RNA and the 5S RNA sequences
    • Papanicolau, C., Gouy, M. & Ninio, J. (1984). An energy model which predicts the correct folding of both the t RNA and the 5S RNA sequences. Nucleic Acids Res. 12, 31-44.
    • (1984) Nucleic Acids Res , vol.12 , pp. 31-44
    • Papanicolau, C.1    Gouy, M.2    Ninio, J.3
  • 30
    • 0025351085 scopus 로고
    • Pseudoknots: A new motif in the RNA game
    • Pleij, C. W. A. (1990). Pseudoknots: a new motif in the RNA game. Trends Biochem. Sci. 15, 143-147.
    • (1990) Trends Biochem. Sci , vol.15 , pp. 143-147
    • Pleij, C.W.A.1
  • 33
    • 0026483177 scopus 로고
    • Structural and functional aspects of RNA pseudoknots
    • ten Dam, E., Pleij, K. & Draper, D. (1992). Structural and functional aspects of RNA pseudoknots. Biochemistry 31, 11665-11676.
    • (1992) Biochemistry , vol.31 , pp. 11665-11676
    • Ten Dam, E.1    Pleij, K.2    Draper, D.3
  • 34
    • 0027245418 scopus 로고
    • Genetic algorithms for protein folding simulations
    • Unger, R. & Mould, J. (1993). Genetic algorithms for protein folding simulations. J. molec. Biol. 231, 75-81.
    • (1993) J. Molec. Biol , vol.231 , pp. 75-81
    • Unger, R.1    Mould, J.2
  • 35
    • 0018254569 scopus 로고
    • RNA secondary structure: A complete mathematical analysis
    • Waterman, M. S. & Smith, T. F. (1978). RNA secondary structure: a complete mathematical analysis. Math. Biosci. 42, 257-266.
    • (1978) Math. Biosci , vol.42 , pp. 257-266
    • Waterman, M.S.1    Smith, T.F.2
  • 36
    • 0024477261 scopus 로고
    • On finding all suboptimal foldings of an RNA molecule
    • Zuker, M. (1989). On finding all suboptimal foldings of an RNA molecule. Science 244, 48-52.
    • (1989) Science , vol.244 , pp. 48-52
    • Zuker, M.1
  • 37
    • 0019876473 scopus 로고
    • Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information
    • Zuker, M. & 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
    • Zuker, M.1    Stiegler, P.2
  • 38
    • 0025731211 scopus 로고
    • The comparison of optimal and suboptimal RNA secondary structures predicted by free energy minimization with structures determined by phylogenetic comparison
    • Zuker, M., Jaeger, J. A. & Turner, D. H. (1991). The comparison of optimal and suboptimal RNA secondary structures predicted by free energy minimization with structures determined by phylogenetic comparison. Nucleic Acids Res. 19, 2707-2714.
    • (1991) Nucleic Acids Res , vol.19 , pp. 2707-2714
    • Zuker, M.1    Jaeger, J.A.2    Turner, D.H.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.