Biophysics of the DNA molecule
暂无分享,去创建一个
[1] Albert S. Benight,et al. Thermal denaturation of DNA molecules: A comparison of theory with experiment , 1985 .
[2] V. Anshelevich,et al. Torsional and bending rigidity of the double helix from data on small DNA rings. , 1985, Journal of biomolecular structure & dynamics.
[3] V. Anshelevich,et al. Application of polyelectrolyte theory to the study of the B-Z transition in DNA (1). , 1985, Journal of biomolecular structure & dynamics.
[4] Tetsuo Deguchi,et al. A Statistical Study of Random Knotting Using the Vassiliev Invariants , 1994 .
[5] S. Mirkin,et al. Triplex DNA structures. , 1995, Annual review of biochemistry.
[6] R. Clegg. Fluorescence resonance energy transfer and nucleic acids. , 1992, Methods in enzymology.
[7] J. Brahms,et al. Fine structure in the thermal denaturation of DNA: high temperature-resolution spectrophotometric studies. , 1980, CRC critical reviews in biochemistry.
[8] M. Egholm,et al. DNA unwinding upon strand-displacement binding of a thymine-substituted polyamide to double-stranded DNA. , 1993, Proceedings of the National Academy of Sciences of the United States of America.
[9] S. Kozyavkin,et al. The kinetics of DNA helix-coil subtransitions. , 1986, Journal of biomolecular structure & dynamics.
[10] V. V. Anshelevich,et al. Towards an exact theory of polyelectrolytes , 1984 .
[11] M. Frank-Kamenetskii,et al. Conformational changes in DNA molecules. , 1974, Annual review of biophysics and bioengineering.
[12] B. Zimm,et al. Counter-ion condensation and system dimensionality. , 1983, Journal of biomolecular structure & dynamics.
[13] Theory of chiral order in random copolymers. , 1995, Physical review letters.
[14] A. V. Lukashin,et al. Statistical mechanics and topology of polymer chains , 1975, Nature.
[15] T. Deguchi,et al. Topology of closed random polygons , 1993 .
[16] Y. Lyubchenko,et al. Direct comparison of theoretical and experimental melting profiles for RFII ΦX174 DNA , 1978, Nature.
[17] M. Guéron,et al. Studies of base pair kinetics by NMR measurement of proton exchange. , 1995, Methods in enzymology.
[18] S. Mirkin,et al. H-DNA and related structures. , 1994, Annual review of biophysics and biomolecular structure.
[19] P. Dervan,et al. Sequence-specific cleavage of double helical DNA by triple helix formation. , 1987, Science.
[20] N. Cozzarelli,et al. The stereostructure of knots and catenanes produced by phage λ integrative recombination: implications for mechanism and DNA structure , 1985, Cell.
[21] M. Record,et al. Salt-nucleic acid interactions. , 1995, Annual review of physical chemistry.
[22] V. Anshelevich,et al. Polyelectrolyte model of DNA , 1987 .
[23] M. Guéron,et al. A tetrameric DNA structure with protonated cytosine-cytosine base pairs , 1993, Nature.
[24] Peter E. Nielsen,et al. PNA hybridizes to complementary oligonucleotides obeying the WatsonCrick hydrogen-bonding rules , 1993, Nature.
[25] M. Karplus,et al. How does a protein fold? , 1994, Nature.
[26] S. Mirkin,et al. Structures of homopurine-homopyrimidine tract in superhelical DNA. , 1986, Journal of biomolecular structure & dynamics.
[27] J. Wang,et al. Torsional rigidity of DNA and length dependence of the free energy of DNA supercoiling. , 1984, Journal of molecular biology.
[28] M. Tricot. Comparison of experimental and theoretical persistence length of some polyelectrolytes at various ionic strengths , 1984 .
[29] M. Egholm,et al. Sequence-selective recognition of DNA by strand displacement with a thymine-substituted polyamide. , 1991, Science.
[30] Yusaku Tagashira,et al. Stabilities of nearest‐neighbor doublets in double‐helical DNA determined by fitting calculated melting profiles to observed profiles , 1981 .
[31] V. Anshelevich,et al. Slow relaxational processes in the melting of linear biopolymers: A theory and its application to nucleic acids , 1984, Biopolymers.
[32] T M Jovin,et al. Parallel stranded duplex DNA. , 1988, Nucleic acids research.
[33] Tetsuo Deguchi,et al. A new algorithm for numerical calculation of link invariants , 1993 .
[34] V V Anshelevich,et al. Variance of writhe for wormlike DNA rings with excluded volume. , 1989, Journal of biomolecular structure & dynamics.
[35] J. Bond,et al. Conformational transitions of duplex and triplex nucleic acid helices: thermodynamic analysis of effects of salt concentration on stability using preferential interaction coefficients. , 1994, Biophysical journal.
[36] James H. White. Self-Linking and the Gauss Integral in Higher Dimensions , 1969 .
[37] V. Potaman,et al. Triple-Helical Nucleic Acids , 1995, Springer New York.
[38] C. Bustamante,et al. Overstretching B-DNA: The Elastic Response of Individual Double-Stranded and Single-Stranded DNA Molecules , 1996, Science.
[39] M. Guéron,et al. Composite cylinder models of DNA: application to the electrostatics of the B-Z transition. , 1993, Biophysical journal.
[40] A. Rich,et al. Crystal structure of four-stranded Oxytricha telomeric DNA , 1992, Nature.
[41] V. Anshelevich,et al. Statistical mechanics of supercoils and the torsional stiffness of the DNA double helix , 1979, Nature.
[42] A pH-dependent structural transition in the homopurine-homopyrimidine tract in superhelical DNA. , 1986, Journal of biomolecular structure & dynamics.
[43] M. Fixman,et al. Theory of DNA melting curves , 1977, Biopolymers.
[44] L. Gold,et al. Let's get specific: the relationship between specificity and affinity. , 1995, Chemistry & biology.
[45] Y. Lyubchenko,et al. The nonequilibrium character of DNA melting: effects of the heating rate on the fine structure of melting curves. , 1984, Nucleic acids research.
[46] M. Fixman. The flexibility of polyelectrolyte molecules , 1982 .
[47] J. Wang,et al. Knotting of a DNA chain during ring closure. , 1993, Science.
[48] M. Frank-Kamenetskii,et al. Left-handed Z form in superhelical DNA: a theoretical study. , 1984, Journal of biomolecular structure & dynamics.
[49] J. Wang,et al. Knotted single-stranded DNA rings: a novel topological isomer of circular single-stranded DNA formed by treatment with Escherichia coli omega protein. , 1976, Journal of molecular biology.
[50] M. D. Frank-Kamenet︠s︡kiĭ,et al. Unraveling DNA : the most important molecule of life , 1997 .
[51] J. SantaLucia,et al. Improved nearest-neighbor parameters for predicting DNA duplex stability. , 1996, Biochemistry.
[52] Peter E. Nielsen,et al. Ionic Effects on the Stability and Conformation of Peptide Nucleic Acid Complexes , 1996 .
[53] V. Ivanov,et al. A-DNA in solution as studied by diverse approaches. , 1992, Methods in enzymology.
[54] A. Bensimon,et al. The Elasticity of a Single Supercoiled DNA Molecule , 1996, Science.
[55] P. V. von Hippel,et al. On the specificity of DNA-protein interactions. , 1986, Proceedings of the National Academy of Sciences of the United States of America.
[56] Alexander Vologodskii,et al. REVIEWS OF TOPICAL PROBLEMS: Topological aspects of the physics of polymers: The theory and its biophysical applications , 1981 .
[57] Jacques H. van Boom,et al. Molecular structure of a left-handed double helical DNA fragment at atomic resolution , 1979, Nature.
[58] M. Fixman,et al. The Poisson–Boltzmann equation and its application to polyelectrolytes , 1979 .
[59] J. Feigon,et al. Triple-strand formation in the homopurine:homopyrimidine DNA oligonucleotides d(G-A)4 and d(T-C)4 , 1989, Nature.
[60] Peter E. Nielsen,et al. DNA-like double helix formed by peptide nucleic acid , 1994, Nature.
[61] M. Frank-Kamenetskii,et al. A theoretical analysis of specificity of nucleic acid interactions with oligonucleotides and peptide nucleic acids (PNAs). , 1998, Journal of molecular biology.
[62] Gerald S. Manning,et al. Limiting Laws and Counterion Condensation in Polyelectrolyte Solutions I. Colligative Properties , 1969 .
[63] B R Amirikyan,et al. Allowance for heterogeneous stacking in the DNA helix-coil transition theory. , 1984, Journal of biomolecular structure & dynamics.
[64] J. Berger,et al. Structure and mechanism of DNA topoisomerase II , 1996, Nature.
[65] M. Frank-Kamenetskii,et al. Protection against UV-induced pyrimidine dimerization in DNA by triplex formation , 1990, Nature.
[66] Marko,et al. Statistical mechanics of supercoiled DNA. , 1995, Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics.
[67] J. Wang,et al. Conformational fluctuations of DNA helix. , 1975, Proceedings of the National Academy of Sciences of the United States of America.
[68] D. Schwartz,et al. Separation of yeast chromosome-sized DNAs by pulsed field gradient gel electrophoresis , 1984, Cell.
[69] F. Crick,et al. Molecular Structure of Nucleic Acids: A Structure for Deoxyribose Nucleic Acid , 1953, Nature.
[70] M. Frank-Kamenetskii,et al. Comparison of different theoretical descriptions of helix–coil transitions in DNA , 1976 .
[71] D. Stigter,et al. Interactions of highly charged colloidal cylinders with applications to double‐stranded DNA , 1977 .
[72] V V Demidov,et al. Kinetics and mechanism of polyamide ("peptide") nucleic acid binding to duplex DNA. , 1995, Proceedings of the National Academy of Sciences of the United States of America.
[73] E. Siggia,et al. Fluctuations and supercoiling of DNA. , 1994, Science.
[74] M Frank-Kamenetskii,et al. Conformational and thermodynamic properties of supercoiled DNA. , 1992, Journal of molecular biology.
[75] P. Nielsen,et al. PNA as a rare genome-cutter , 1996, Nature.
[76] J. Dubochet,et al. Cryoelectron microscopy of DNA molecules in solution. , 1992, Methods in enzymology.
[77] A. Rich,et al. Crystal structure of a four-stranded intercalated DNA: d(C4). , 1994, Biochemistry.
[78] R. Sinden. DNA Structure and Function , 1994 .
[79] M. Frank-Kamenetskii,et al. Kinetic analysis of specificity of duplex DNA targeting by homopyrimidine peptide nucleic acids. , 1997, Biophysical journal.
[80] A. Suyama,et al. Local stability of DNA and RNA secondary structure and its relation to biological functions. , 1986, Progress in biophysics and molecular biology.
[81] F. B. Fuller. The writhing number of a space curve. , 1971, Proceedings of the National Academy of Sciences of the United States of America.
[82] K. Klenin,et al. Computer simulation of DNA supercoiling. , 1991, Journal of molecular biology.
[83] A V Lukashin,et al. Fluctuations in superhelical DNA. , 1979, Nucleic acids research.
[84] G. Ramanathan,et al. Statistical mechanics of electrolytes and polyelectrolytes. II. Counterion condensation on a line charge , 1982 .
[85] Y. Lyubchenko,et al. Fluctuational opening of the double helix as revealed by theoretical and experimental study of DNA interaction with formaldehyde. , 1976, Journal of molecular biology.
[86] Y. Lyubchenko,et al. Electron microscopy of the melting of sequenced DNA , 1985, Biopolymers.
[87] N. Kallenbach,et al. Base-pair opening and closing reactions in the double helix. A stopped-flow hydrogen exchange study in poly(rA).poly(rU). , 1979, Journal of molecular biology.
[88] M. Straume,et al. Calorimetry: a tool for DNA and ligand-DNA studies. , 1992, Methods in enzymology.
[89] H. Vosberg,et al. Action of nicking-closing enzyme on supercoiled and nonsupercoiled closed circular DNA: formation of a Boltzmann distribution of topological isomers. , 1975, Proceedings of the National Academy of Sciences of the United States of America.
[90] V. Anshelevich,et al. A theoretical study of formation of DNA noncanonical structures under negative superhelical stress. , 1988, Journal of biomolecular structure & dynamics.
[91] E. Siggia,et al. Entropic elasticity of lambda-phage DNA. , 1994, Science.
[92] N R Cozzarelli,et al. Probability of DNA knotting and the effective diameter of the DNA double helix. , 1993, Proceedings of the National Academy of Sciences of the United States of America.
[93] H. Frisch. Macromolecular topology. Metastable isomers from pseudo interpenetrating polymer networks , 1993 .
[94] M. Frank-Kamenetskii,et al. Modeling supercoiled DNA. , 1992, Methods in enzymology.
[95] F. Crick,et al. Molecular structure of nucleic acids , 2004, JAMA.
[96] M. Frank-Kamenetskii,et al. Thermodynamics of the B–Z transition in superhelical DNA , 1984, Nature.
[97] D. Praseuth,et al. Sequence-specific recognition, photocrosslinking and cleavage of the DNA double helix by an oligo-[alpha]-thymidylate covalently linked to an azidoproflavine derivative. , 1987, Nucleic acids research.
[98] R. Dickerson,et al. DNA structure from A to Z. , 1992, Methods in enzymology.
[99] M. Guéron,et al. A simple explanation of the electrostatics of the B-to-Z transition of DNA. , 1992, Proceedings of the National Academy of Sciences of the United States of America.
[100] Chung-Cheng Liu,et al. Type II DNA topoisomerases: Enzymes that can unknot a topologically knotted DNA molecule via a reversible double-strand break , 1980, Cell.
[101] M. D. Morris,et al. Optical Melting of 128 Octamer DNA Duplexes , 1995, The Journal of Biological Chemistry.
[102] B. Honig,et al. The electrostatic contribution to the B to Z transition of DNA. , 1996, Biochemistry.
[103] Peter E. Nielsen,et al. A new class of genome rare cutters , 1996, Nucleic Acids Res..
[104] C. Cantor,et al. A stable complex between homopyrimidine oligomers and the homologous regions of duplex DNAs. , 1988, Nucleic acids research.
[105] M. Guéron,et al. A single mode of DNA base-pair opening drives imino proton exchange , 1987, Nature.
[106] K. Klenin,et al. Effect of excluded volume on topological properties of circular DNA. , 1988, Journal of biomolecular structure & dynamics.
[107] M. L. Bret. Electrostatic contribution to the persistence length of a polyelectrolyte , 1982 .
[108] Gérard Vergoten,et al. Biomolecular structure and dynamics , 1997 .
[109] M J Doktycz,et al. Studies of DNA dumbbells. I. Melting curves of 17 DNA dumbbells with different duplex stem sequences linked by T4 endloops: Evaluation of the nearest‐neighbor stacking interactions in DNA , 1992, Biopolymers.
[110] V. Anshelevich,et al. Statistical‐mechanical treatment of violations of the double helix in supercoiled DNA , 1979, Biopolymers.
[111] A. Vedenov,et al. The helix-coil transition in DNA , 1972 .
[112] P. Hagerman,et al. Application of the method of phage T4 DNA ligase-catalyzed ring-closure to the study of DNA structure. II. NaCl-dependence of DNA flexibility and helical repeat. , 1990, Journal of molecular biology.
[113] Z. Shao,et al. Biological atomic force microscopy: from microns to nanometers and beyond. , 1995, Annual review of cell and developmental biology.
[114] D. Poland,et al. Recursion relation generation of probability profiles for specific‐sequence macromolecules with long‐range correlations , 1974, Biopolymers.
[115] M. Frank-Kamenetskii,et al. How the double helix breathes , 1987, Nature.
[116] L. Betts,et al. A Nucleic Acid Triple Helix Formed by a Peptide Nucleic Acid-DNA Complex , 1995, Science.
[117] L. Peliti,et al. Biologically inspired physics , 1991 .
[118] W. Olson,et al. A numerical counterion condensation analysis of the B‐Z transition of DNA , 1990, Biopolymers.
[119] M. Record,et al. Polyelectrolyte Theories and their Applications to DNA , 1982 .
[120] Allowance for spatial dispersion of dielectric permittivity in polyelectrolyte model of DNA. , 1991, Journal of biomolecular structure & dynamics.
[121] G. Weisbuch,et al. Polyelectrolyte theory. I. Counterion accumulation, site‐binding, and their insensitivity to polyelectrolyte shape in solutions containing finite salt concentrations , 1980 .
[122] H. Stanley,et al. Statistical physics of macromolecules , 1995 .
[123] P. Doty,et al. Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. , 1962, Journal of molecular biology.
[124] S. Mirkin,et al. DNA H form requires a homopurine–homopyrimidine mirror repeat , 1987, Nature.
[125] M. Frank-Kamenetskii,et al. Photofootprinting of DNA triplexes. , 1991, Nucleic acids research.
[126] S. Smith,et al. Direct mechanical measurements of the elasticity of single DNA molecules by using magnetic beads. , 1992, Science.