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Volumn 6, Issue 2-3, 2001, Pages 201-221

RNA secondary structure determination and representation based on constraints satisfaction

Author keywords

Cliques; Constraints satisfaction; Determination; Representation; RNA; Secondary structure

Indexed keywords


EID: 0035367280     PISSN: 13837133     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1011433605905     Document Type: Article
Times cited : (8)

References (44)
  • 2
    • 0026593806 scopus 로고
    • Thermodynamic Parameters for Loop formation in RNA and DNA Hairpin Tetraloops
    • Antao, V. P., & Tinoco, I. (1992). Thermodynamic Parameters for Loop Formation in RNA and DNA Hairpin Tetraloops. Nucleic Acids Research, 20: 819-824.
    • (1992) Nucleic Acids Research , vol.20 , pp. 819-824
    • Antao, V.P.1    Tinoco, I.2
  • 4
    • 0029986908 scopus 로고    scopus 로고
    • Palingol: A declarative programming language to describe nucleic acids' secondary structures and to scan sequence databases
    • Billoud, B., Kontic, M., & Viari, A. (1996). Palingol: a declarative programming language to describe nucleic acids' secondary structures and to scan sequence databases. Nucleic Acids Research, 24(8): 1395-1403.
    • (1996) Nucleic Acids Research , vol.24 , Issue.8 , pp. 1395-1403
    • Billoud, B.1    Kontic, M.2    Viari, A.3
  • 5
    • 84976668743 scopus 로고
    • Algorithm 457: Finding all cliques of an undirected graph
    • Bron, C., & Kerbosh, J. (1973). Algorithm 457: finding all cliques of an undirected graph. Communications of the ACM, 16(9): 575-577.
    • (1973) Communications of the ACM , vol.16 , Issue.9 , pp. 575-577
    • Bron, C.1    Kerbosh, J.2
  • 6
    • 0023984838 scopus 로고
    • An improved algorithm for nucleic acid secondary structure dispaly
    • Bruccoleri, R. E., & Heinrich, G. (1988). An improved algorithm for nucleic acid secondary structure dispaly. Computer Applications in BioSciences, 4(1): 167-173.
    • (1988) Computer Applications in BioSciences , vol.4 , Issue.1 , pp. 167-173
    • Bruccoleri, R.E.1    Heinrich, G.2
  • 7
    • 0030789737 scopus 로고    scopus 로고
    • Essa: An integrated and interactive computer tool for analysing RNA secondary structure
    • Chetouani, F., Monestie, P., Thebault, P., Gaspin, C., & Michot, B. (1997). Essa: an integrated and interactive computer tool for analysing RNA secondary structure. Nucleic Acid Research, 25(17).
    • (1997) Nucleic Acid Research , vol.25 , Issue.17
    • Chetouani, F.1    Monestie, P.2    Thebault, P.3    Gaspin, C.4    Michot, B.5
  • 9
    • 0023842374 scopus 로고
    • Network-based heuristics for constraint-satisfaction problems
    • Dechter, R. J., & Pearl, J. (1987). Network-based heuristics for constraint-satisfaction problems. Artificial Intelligence, 34(1): 1-38.
    • (1987) Artificial Intelligence , vol.34 , Issue.1 , pp. 1-38
    • Dechter, R.J.1    Pearl, J.2
  • 11
    • 0019899621 scopus 로고
    • A sufficient condition for backtrack-free search
    • Freuder, E. C. (1982). A sufficient condition for backtrack-free search. Journal of the ACM, 29(1): 24-32.
    • (1982) Journal of the ACM , vol.29 , Issue.1 , pp. 24-32
    • Freuder, E.C.1
  • 12
    • 0022144787 scopus 로고
    • A sufficient condition for backtrack-bounded search
    • Freuder, E. C. (1985). A sufficient condition for backtrack-bounded search. Journal of the ACM, 32(4): 755-766.
    • (1985) Journal of the ACM , vol.32 , Issue.4 , pp. 755-766
    • Freuder, E.C.1
  • 14
    • 0028823370 scopus 로고
    • An interactive framework for RNA secondary structure prediction with a dynamical treatment of constraints
    • Gaspin, C., & Westhof, E. (1995). An interactive framework for RNA secondary structure prediction with a dynamical treatment of constraints. Journal of Molecular Biology, 254: 163-174.
    • (1995) Journal of Molecular Biology , vol.254 , pp. 163-174
    • Gaspin, C.1    Westhof, E.2
  • 15
    • 0041140892 scopus 로고
    • Algorithm graph theory and perfect graphs
    • Ed. Werner Rheinbolt, Academic Press, Inc., Harcourt Brace Jovanovich, Publishers
    • Golumbic, M. C. (1992). Algorithm graph theory and perfect graphs. Computer Science and Applied Mathematics, Ed. Werner Rheinbolt, Academic Press, Inc., Harcourt Brace Jovanovich, Publishers.
    • (1992) Computer Science and Applied Mathematics
    • Golumbic, M.C.1
  • 16
    • 0342896784 scopus 로고
    • Secondary structure prediction of RNA
    • M. J. Bishop and C. J. Rawlings, eds. (Oxford: IRL)
    • Gouy, M. (1987). Secondary structure prediction of RNA. Nucleic Acids and Protein Sequence Analysis, A Practical Approach, pages 259-284. M. J. Bishop and C. J. Rawlings, eds. (Oxford: IRL)
    • (1987) Nucleic Acids and Protein Sequence Analysis, a Practical Approach , pp. 259-284
    • Gouy, M.1
  • 17
    • 0019067870 scopus 로고
    • Increasing tree search efficiently for constraint satisfaction problems
    • Haralick, R. M., & Elliot, G. L. (1980). Increasing tree search efficiently for constraint satisfaction problems. Artificial Intelligence, 14: 263-313.
    • (1980) Artificial Intelligence , vol.14 , pp. 263-313
    • Haralick, R.M.1    Elliot, G.L.2
  • 20
    • 0024827733 scopus 로고
    • Phylogenetic comparative analysis of RNA secondary structures
    • James, B. D., Olsen, G. J., & Pace, N. R. (1989). Phylogenetic comparative analysis of RNA secondary structures. Methods in Enzymology, 180: 227-239.
    • (1989) Methods in Enzymology , vol.180 , pp. 227-239
    • James, B.D.1    Olsen, G.J.2    Pace, N.R.3
  • 21
    • 0030604698 scopus 로고    scopus 로고
    • Site-specific ribose methylation of preribosomal RNA: A novel function for small nucleolar RNAs
    • Kiss-Las̀zlo, Z., Henry, Y., Bachellerie, J.-P., Caizergues-Ferrer, M., & Kiss, T. (1996). Site-specific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs. Cell, 85: 1077-1088.
    • (1996) Cell , vol.85 , pp. 1077-1088
    • Kiss-Las̀zlo, Z.1    Henry, Y.2    Bachellerie, J.-P.3    Caizergues-Ferrer, M.4    Kiss, T.5
  • 22
    • 0026550371 scopus 로고
    • CPROP: A rule-based program for constructing genetic maps
    • Letovsky, S., & Berlyn, M. B. (1992). CPROP: a rule-based program for constructing genetic maps. Genomics, 12: 435-446.
    • (1992) Genomics , vol.12 , pp. 435-446
    • Letovsky, S.1    Berlyn, M.B.2
  • 23
    • 49449120803 scopus 로고
    • Consistency in networks of relations
    • Mackworth, A. K. (1977). Consistency in networks of relations. Artificial Intelligence, 8: 99-118.
    • (1977) Artificial Intelligence , vol.8 , pp. 99-118
    • Mackworth, A.K.1
  • 24
    • 0026077710 scopus 로고
    • The combination of symbolic and numerical computation for three-dimensional modeling of RNA
    • Major, F., Turcotte, M., Gautheret, D., Lapalme, G., Fillion, E., & Cedergren, R. (1991). The combination of symbolic and numerical computation for three-dimensional modeling of RNA. Science, 253: 1255-1260.
    • (1991) Science , vol.253 , pp. 1255-1260
    • Major, F.1    Turcotte, M.2    Gautheret, D.3    Lapalme, G.4    Fillion, E.5    Cedergren, R.6
  • 25
    • 0025264854 scopus 로고
    • The equilibrium partition function and base pair binding probabilities for RNA secondary structure
    • McCaskill, J. (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.1
  • 26
    • 0025678737 scopus 로고
    • Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis
    • Michel, F. & Westhof, E. (1990). Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis. Journal of Molecular Biology, 216: 585-610.
    • (1990) Journal of Molecular Biology , vol.216 , pp. 585-610
    • Michel, F.1    Westhof, E.2
  • 27
    • 0029822198 scopus 로고    scopus 로고
    • Visualizing the logic behind RNA self-assembly
    • Michel, F., & Westhof, E. (1996). Visualizing the logic behind RNA self-assembly. Science, 273: 1676-1677.
    • (1996) Science , vol.273 , pp. 1676-1677
    • Michel, F.1    Westhof, E.2
  • 30
  • 34
    • 0028838032 scopus 로고
    • Molecular dissection of the pseudoknot governing the translational regulation of Escherichia coli ribosomal protein S15
    • Philippe, C., Bnard, L., Portier, C., Westhof, E., Ereshmann, B., & Ehresmann. C. (1995). Molecular dissection of the pseudoknot governing the translational regulation of Escherichia coli ribosomal protein S15. Nucleic Acids Research, 23: 18-28.
    • (1995) Nucleic Acids Research , vol.23 , pp. 18-28
    • Philippe, C.1    Bnard, L.2    Portier, C.3    Westhof, E.4    Ereshmann, B.5    Ehresmann, C.6
  • 35
    • 0030829855 scopus 로고    scopus 로고
    • RnaViz, a program for the visualisation of RNA secondary structure
    • De Rijk, P., & De Wachter, R. (1997). RnaViz, a program for the visualisation of RNA secondary structure. Nucleic Acids Research, 25(22): 4679-4684.
    • (1997) Nucleic Acids Research , vol.25 , Issue.22 , pp. 4679-4684
    • De Rijk, P.1    De Wachter, R.2
  • 36
    • 0019563065 scopus 로고
    • Planning with constraints (MOLGEN:part1)
    • Stefik, M. (1981). Planning with constraints (MOLGEN:part1). Artificial Intelligence, 16: 111-170.
    • (1981) Artificial Intelligence , vol.16 , pp. 111-170
    • Stefik, M.1
  • 40
    • 0342896783 scopus 로고
    • Computer-aided structural biochemistry of ribonucleic acids
    • D. L. Beveridge and R. Lavery, eds., Adenine Press, New York
    • Westhof, E., Romby, P., Ehresmann, C., & Ehresmann, B. (1990). Computer-aided structural biochemistry of ribonucleic acids. In D. L. Beveridge and R. Lavery, eds., Theoretical Biochemistry and Molecular Biophysics, pages 399-409. Adenine Press, New York.
    • (1990) Theoretical Biochemistry and Molecular Biophysics , pp. 399-409
    • Westhof, E.1    Romby, P.2    Ehresmann, C.3    Ehresmann, B.4
  • 41
    • 0027686742 scopus 로고
    • A constraint logic programming framework for constructing DNA restriction maps
    • Yap, R. H. C. (1993). A constraint logic programming framework for constructing DNA restriction maps. Artificial Intelligence in Medicine, 5: 447-464.
    • (1993) Artificial Intelligence in Medicine , vol.5 , pp. 447-464
    • Yap, R.H.C.1
  • 43
    • 0024477261 scopus 로고
    • On finding all suboptimal foldings of a RNA molecule
    • Zuker, M. (1989). On finding all suboptimal foldings of a RNA molecule. Science, 244: 48-52.
    • (1989) Science , vol.244 , pp. 48-52
    • Zuker, M.1
  • 44
    • 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 Research, 9: 133-148.
    • (1981) Nucleic Acids Research , vol.9 , pp. 133-148
    • Zuker, M.1    Stiegler, P.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.