메뉴 건너뛰기




Volumn 15, Issue 5, 1999, Pages 370-375

Statistical mechanical simulation of polymeric DNA melting with MELTSIM

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; FUNGAL DNA; PLASMID DNA;

EID: 0032998464     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/15.5.370     Document Type: Article
Times cited : (158)

References (24)
  • 1
    • 0030875847 scopus 로고    scopus 로고
    • Thermodynamics and NMR of internal g · t mismatches in DNA
    • Allawi, H.T. and SantaLucia, J., Jr (1997) Thermodynamics and NMR of internal G · T mismatches in DNA. Biochemistry, 36, 10 581-10 594.
    • (1997) Biochemistry , vol.36 , pp. 10581-10594
    • Allawi, H.T.1    SantaLucia J., Jr.2
  • 3
    • 0032309652 scopus 로고    scopus 로고
    • Comparison of experimental with theoretical melting of the yeast genome and individual yeast chromosome denaturation mapping using the program MELTSIM
    • Bizzaro, J.W., Marx, K.A. and Blake, R.D. (1998) Comparison of experimental with theoretical melting of the yeast genome and individual yeast chromosome denaturation mapping using the program MELTSIM. Proceedings, Materials Research Society, Pittsburgh, PA, 489, 73-78.
    • (1998) Proceedings, Materials Research Society, Pittsburgh, PA , vol.489 , pp. 73-78
    • Bizzaro, J.W.1    Marx, K.A.2    Blake, R.D.3
  • 4
    • 0023374525 scopus 로고
    • Cooperative lengths of DNA during melting
    • Blake, R.D. (1987) Cooperative lengths of DNA during melting. Biopolymers, 26, 1063-1074.
    • (1987) Biopolymers , vol.26 , pp. 1063-1074
    • Blake, R.D.1
  • 7
    • 0023025110 scopus 로고
    • Distribution and evolution of sequence characteristics in the E. coli genome
    • Blake, R.D. and Earley, S. (1986) Distribution and evolution of sequence characteristics in the E. coli genome. J. Biomol. Struct. Dyn., 4, 291-307.
    • (1986) J. Biomol. Struct. Dyn. , vol.4 , pp. 291-307
    • Blake, R.D.1    Earley, S.2
  • 8
    • 0022393504 scopus 로고
    • Spectral analysis for base composition of DNA undergoing melting
    • Blake, R.D. and Hydorn, T.G. (1985) Spectral analysis for base composition of DNA undergoing melting. J. Biochem. Biophys. Methods, 11, 307-316.
    • (1985) J. Biochem. Biophys. Methods , vol.11 , pp. 307-316
    • Blake, R.D.1    Hydorn, T.G.2
  • 9
    • 36849097642 scopus 로고
    • Effect of excluded volume on phase transitions in biopolymers
    • Fisher, M.E. (1966) Effect of excluded volume on phase transitions in biopolymers. J. Chem. Phys., 45, 1464-1469.
    • (1966) J. Chem. Phys. , vol.45 , pp. 1464-1469
    • Fisher, M.E.1
  • 10
    • 0017587485 scopus 로고
    • Theory of DNA melting curves
    • Fixman, M. and Freiere, J.J. (1977) Theory of DNA melting curves. Biopolymers, 16, 2693-2704.
    • (1977) Biopolymers , vol.16 , pp. 2693-2704
    • Fixman, M.1    Freiere, J.J.2
  • 11
    • 0015164882 scopus 로고
    • Simplification of the empirical relationship between melting temperature of DNA, its GC content and concentration of sodium ions in solution
    • Frank-Kamenetskii, M.D. (1971) Simplification of the empirical relationship between melting temperature of DNA, its GC content and concentration of sodium ions in solution. Biopolymers, 10, 2623-2624.
    • (1971) Biopolymers , vol.10 , pp. 2623-2624
    • Frank-Kamenetskii, M.D.1
  • 12
    • 0027006853 scopus 로고
    • How many numbers are required to specify sequence-dependent properties of polynucleotides?
    • Goldstein, R.F. and Benight, A.S. (1992) How many numbers are required to specify sequence-dependent properties of polynucleotides? Biopolymers, 32, 1679-1693.
    • (1992) Biopolymers , vol.32 , pp. 1679-1693
    • Goldstein, R.F.1    Benight, A.S.2
  • 13
    • 36849138710 scopus 로고
    • Generalization of the one-dimensional ising model to helix transitions in nucleic acids and proteins
    • Hill, T.L. (1959) Generalization of the one-dimensional Ising model to helix transitions in nucleic acids and proteins. J. Chem. Phys., 30, 383-387.
    • (1959) J. Chem. Phys. , vol.30 , pp. 383-387
    • Hill, T.L.1
  • 14
    • 73649209034 scopus 로고
    • Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature
    • Marmur, J. and Doty, P. (1962) Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J. Mol. Biol., 5, 109-118.
    • (1962) J. Mol. Biol. , vol.5 , pp. 109-118
    • Marmur, J.1    Doty, P.2
  • 15
    • 0031759433 scopus 로고    scopus 로고
    • Comparison of experimental to MELTSIM calculated DNA melting of the (A+T) rich dictyostelium discoideum genome: Denaturation maps distinguish exons from introns
    • Marx, K.A., Assil, I.Q., Bizzaro, J.W. and Blake, R.D. (1998) Comparison of experimental to MELTSIM calculated DNA melting of the (A+T) rich dictyostelium discoideum genome: denaturation maps distinguish exons from introns. J. Biomol. Struct. Dyn., 16, 329-340.
    • (1998) J. Biomol. Struct. Dyn. , vol.16 , pp. 329-340
    • Marx, K.A.1    Assil, I.Q.2    Bizzaro, J.W.3    Blake, R.D.4
  • 17
    • 0016266885 scopus 로고
    • Recursion relation generation of probability profiles for specific-sequence macromolecules with long-range correlations
    • Poland, D. (1974) Recursion relation generation of probability profiles for specific-sequence macromolecules with long-range correlations. Biopolymers, 13, 1859-1871.
    • (1974) Biopolymers , vol.13 , pp. 1859-1871
    • Poland, D.1
  • 19
    • 0032539693 scopus 로고    scopus 로고
    • A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics
    • SantaLucia, J., Jr (1998) A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics. Proc. Natl Acad. Sci. USA, 95, 1460-1465.
    • (1998) Proc. Natl Acad. Sci. USA , vol.95 , pp. 1460-1465
    • SantaLucia J., Jr.1
  • 20
    • 0021014810 scopus 로고
    • Correlation between thermal stability maps and genetic maps of double-stranded DNAs
    • Suyama, A. and Wada, A. (1983) Correlation between thermal stability maps and genetic maps of double-stranded DNAs. J. Theoret. Biol., 105, 133-145.
    • (1983) J. Theoret. Biol. , vol.105 , pp. 133-145
    • Suyama, A.1    Wada, A.2
  • 22
    • 0021532338 scopus 로고
    • Stability distribution in the phage lambda-DNA double helix: A correlation between physical and genetic structure
    • Wada, A. and Suyama, A. (1984) Stability distribution in the phage lambda-DNA double helix: a correlation between physical and genetic structure. J. Biomol. Struct. Dyn., 2, 573-591.
    • (1984) J. Biomol. Struct. Dyn. , vol.2 , pp. 573-591
    • Wada, A.1    Suyama, A.2
  • 23
    • 0002459355 scopus 로고
    • Thermal denaturation of DNA molecules: A comparison of theory with experiment
    • Wartell, R.M. and Benight, A.S. (1985) Thermal denaturation of DNA molecules: a comparison of theory with experiment. Physics Rep., 126, 67-107.
    • (1985) Physics Rep. , vol.126 , pp. 67-107
    • Wartell, R.M.1    Benight, A.S.2
  • 24
    • 0041990305 scopus 로고
    • Equilibrium denaturation of natural and of periodic synthetic DNA molecules
    • Wartell, R.M. and Montroll, E.W. (1970) Equilibrium denaturation of natural and of periodic synthetic DNA molecules. Adv. Chem. Phys., 22, 129-203.
    • (1970) Adv. Chem. Phys. , vol.22 , pp. 129-203
    • Wartell, R.M.1    Montroll, E.W.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.