-
1
-
-
0013953695
-
Phase transitions in one dimension and the helix-coil transition in polyamino acids
-
Poland, D., and H. A. Scheraga. 1966. Phase transitions in one dimension and the helix-coil transition in polyamino acids. J. Chem. Phys. 45: 1456-1463.
-
(1966)
J. Chem. Phys.
, vol.45
, pp. 1456-1463
-
-
Poland, D.1
Scheraga, H.A.2
-
2
-
-
0013952703
-
Occurrence of a phase transition in nucleic acid models
-
Poland, D., and H. A. Scheraga. 1966. Occurrence of a phase transition in nucleic acid models. J. Chem. Phys. 45: 1464-1469.
-
(1966)
J. Chem. Phys.
, vol.45
, pp. 1464-1469
-
-
Poland, D.1
Scheraga, H.A.2
-
4
-
-
0030024985
-
Overstretching B-DNA: The elastic response of individual double-stranded and single-stranded DNA molecules
-
Smith, S. B., Y. J. Cui, and C. Bustamante. 1996. Overstretching B-DNA: the elastic response of individual double-stranded and single-stranded DNA molecules. Science. 271: 795-799.
-
(1996)
Science
, vol.271
, pp. 795-799
-
-
Smith, S.B.1
Cui, Y.J.2
Bustamante, C.3
-
5
-
-
0000734376
-
Stretching DNA with a receding meniscus: Experiments and models
-
Bensimon, D., A. J. Simon, ..., A. Bensimon. 1995. Stretching DNA with a receding meniscus: experiments and models. Phys. Rev. Lett. 74: 4754-4757.
-
(1995)
Phys. Rev. Lett.
, vol.74
, pp. 4754-4757
-
-
Bensimon, D.1
Simon, A.J.2
Bensimon, A.3
-
6
-
-
85046111775
-
DNA: An extensible molecule
-
Cluzel, P., A. Lebrun, ..., F. Caron, 1996. DNA: an extensible molecule. Science. 271: 792794.
-
(1996)
Science
, vol.271
, pp. 792794
-
-
Cluzel, P.1
Lebrun, A.2
Caron, F.3
-
8
-
-
18344386476
-
Structural transitions of a twisted and stretched DNA molecule
-
Léger, J. F., G. Romano, ..., J. F. Marko. 1999. Structural transitions of a twisted and stretched DNA molecule. Phys. Rev. Lett. 83: 1066.
-
(1999)
Phys. Rev. Lett.
, vol.83
, pp. 1066
-
-
Léger, J.F.1
Romano, G.2
Marko, J.F.3
-
9
-
-
41649096570
-
There and (slowly) back again: Entropy-driven hysteresis in a model of DNA overstretching
-
Whitelam, S., S. Pronk, and P. L. Geissler. 2008. There and (slowly) back again: entropy-driven hysteresis in a model of DNA overstretching. Biophys. J. 94: 2452-2469.
-
(2008)
Biophys. J.
, vol.94
, pp. 2452-2469
-
-
Whitelam, S.1
Pronk, S.2
Geissler, P.L.3
-
10
-
-
0029909230
-
Molecular dynamics simulation of DNA stretching is consistent with the tension observed for extension and strand separation and predicts a novel ladder structure
-
Konrad, M., and J. Bolonick. 1996. Molecular dynamics simulation of DNA stretching is consistent with the tension observed for extension and strand separation and predicts a novel ladder structure. J. Am. Chem. Soc. 118: 10989-10994.
-
(1996)
J. Am. Chem. Soc.
, vol.118
, pp. 10989-10994
-
-
Konrad, M.1
Bolonick, J.2
-
11
-
-
0033603393
-
DNA stretching and compression: Large-scale simulations of double helical structures
-
Kosikov, K. M., A. A. Gorin, ..., W. K. Olson. 1999. DNA stretching and compression: large-scale simulations of double helical structures. J. Mol. Biol. 289: 1301-1326.
-
(1999)
J. Mol. Biol.
, vol.289
, pp. 1301-1326
-
-
Kosikov, K.M.1
Gorin, A.A.2
Olson, W.K.3
-
12
-
-
72549094673
-
Overstretching of a 30 bp DNA duplex studied with steered molecular dynamics simulation: Effects of structural defects on structure and force-extension relation
-
Li, H., and T. Gisler. 2009. Overstretching of a 30 bp DNA duplex studied with steered molecular dynamics simulation: effects of structural defects on structure and force-extension relation. Eur Phys J E Soft Matter. 30: 325-332.
-
(2009)
Eur Phys J e Soft Matter.
, vol.30
, pp. 325-332
-
-
Li, H.1
Gisler, T.2
-
13
-
-
0029899989
-
Modeling extreme stretching of DNA
-
Lebrun, A., and R. Lavery. 1996. Modeling extreme stretching of DNA. Nucleic Acids Res. 24: 2260-2267.
-
(1996)
Nucleic Acids Res.
, vol.24
, pp. 2260-2267
-
-
Lebrun, A.1
Lavery, R.2
-
14
-
-
0035072057
-
Entropy and heat capacity of DNA melting from, temperature dependence of single molecule stretching
-
Williams, M. C., J. R. Wenner, ..., V. A. Bloomfield. 2001. Entropy and heat capacity of DNA melting from, temperature dependence of single molecule stretching. Biophys. J. 80: 1932-1939.
-
(2001)
Biophys. J.
, vol.80
, pp. 1932-1939
-
-
Williams, M.C.1
Wenner, J.R.2
Bloomfield, V.A.3
-
15
-
-
0035146646
-
Force-induced melting of the DNA double helix 1. Thermodynamic analysis
-
Rouzina, I., and V. A. Bloomfield. 2001. Force-induced melting of the DNA double helix 1. Thermodynamic analysis. Biophys. J. 80: 882-893.
-
(2001)
Biophys. J.
, vol.80
, pp. 882-893
-
-
Rouzina, I.1
Bloomfield, V.A.2
-
16
-
-
51049121185
-
DNA overstretching in the presence of glyoxal: Structural evidence of forceinduced DNA melting
-
Shokri, L., M. J. McCauley, ..., M. C. Williams. 2008. DNA overstretching in the presence of glyoxal: structural evidence of forceinduced DNA melting. Biophys. J. 95: 1248-1255.
-
(2008)
Biophys. J.
, vol.95
, pp. 1248-1255
-
-
Shokri, L.1
McCauley, M.J.2
Williams, M.C.3
-
17
-
-
70849086477
-
Unraveling the structure of DNA during overstretching by using multicolor, singlemolecule fluorescence imaging
-
van Mameren, J., P. Gross, ..., E. J. Peterman. 2009. Unraveling the structure of DNA during overstretching by using multicolor, singlemolecule fluorescence imaging. Proc Natl. Acad. Sci. USA. 106: 18231-18236.
-
(2009)
Proc Natl. Acad. Sci. USA
, vol.106
, pp. 18231-18236
-
-
Van Mameren, J.1
Gross, P.2
Peterman, E.J.3
-
19
-
-
0034069676
-
Mechanical stability of single DNA molecules
-
Clausen-Schaumann, H., M. Rief, ..., H. E. Gaub. 2000. Mechanical stability of single DNA molecules. Biophys. J. 78: 1997-2007.
-
(2000)
Biophys. J.
, vol.78
, pp. 1997-2007
-
-
Clausen-Schaumann, H.1
Rief, M.2
Gaub, H.E.3
-
22
-
-
31144451483
-
Structure and energy of a DNA dodecamer under tensile load
-
Piana, S. 2005. Structure and energy of a DNA dodecamer under tensile load. Nucleic Acids Res. 33: 7029-7038.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 7029-7038
-
-
Piana, S.1
-
23
-
-
0038187577
-
Theoretical models for single-molecule DNA and RNA experiments: From elasticity to unzipping
-
Cocco, S., J. F. Marko, and R. Monasson. 2002. Theoretical models for single-molecule DNA and RNA experiments: from elasticity to unzipping. C. R. Phys. 3: 569-584.
-
(2002)
C. R. Phys.
, vol.3
, pp. 569-584
-
-
Cocco, S.1
Marko, J.F.2
Monasson, R.3
-
24
-
-
44949083455
-
Modeling DNA at the mesoscale: A challenge for nonlinear science?
-
Peyrard, M., S. Cuesta-López, and G. James. 2008. Modeling DNA at the mesoscale: a challenge for nonlinear science? Nonlinearity. 21: T91-T100.
-
(2008)
Nonlinearity
, vol.21
-
-
Peyrard, M.1
Cuesta-López, S.2
James, G.3
-
25
-
-
0002459355
-
Thermal denaturation of DNA molecules: A comparison of theory with experiment
-
Wartell, R. M., and A. S. Benight. 1985. Thermal denaturation of DNA molecules: a comparison of theory with experiment. Phys. Rep. 126: 67-107.
-
(1985)
Phys. Rep.
, vol.126
, pp. 67-107
-
-
Wartell, R.M.1
Benight, A.S.2
-
26
-
-
0031555016
-
Modeling extreme extension of DNA
-
Cizeau, P., and J.-.L. Viovy. 1997. Modeling extreme extension of DNA, Biopolymers. 42: 383-385.
-
(1997)
Biopolymers
, vol.42
, pp. 383-385
-
-
Cizeau, P.1
Viovy, J.-L.2
-
27
-
-
0031962307
-
Elasticity theory of the B-DNA to S-DNA transition
-
Ahsan, A., J. Rudnick, and R. Bruinsma. 1998. Elasticity theory of the B-DNA to S-DNA transition. Biophys. J. 74: 132-137.
-
(1998)
Biophys. J.
, vol.74
, pp. 132-137
-
-
Ahsan, A.1
Rudnick, J.2
Bruinsma, R.3
-
30
-
-
40749116530
-
Denaturation transition of stretched DNA
-
Hanke, A., M. G. Ochoa, and R. Metzler. 2008. Denaturation transition of stretched DNA. Phys. Rev. Lett. 100: 018106.
-
(2008)
Phys. Rev. Lett.
, vol.100
, pp. 018106
-
-
Hanke, A.1
Ochoa, M.G.2
Metzler, R.3
-
32
-
-
10844229039
-
Generalized Poland-Scheraga model for DNA hybridization
-
Garel, T., and H. Orland. 2004. Generalized Poland-Scheraga model for DNA hybridization. Biopolymers. 75: 453-467.
-
(2004)
Biopolymers
, vol.75
, pp. 453-467
-
-
Garel, T.1
Orland, H.2
-
33
-
-
0032998464
-
Statistical mechanical simulation of polymeric DNA melting with MELTSIM
-
Blake, R. D., J. W. Bizzaro, ..., J. SantaLucia, Jr. 1999. Statistical mechanical simulation of polymeric DNA melting with MELTSIM. Bioinformatics. 15: 370-375.
-
(1999)
Bioinformatics
, vol.15
, pp. 370-375
-
-
Blake, R.D.1
Bizzaro, J.W.2
SantaLucia Jr., J.3
-
34
-
-
19044363437
-
Roles of stiffness and excluded volume in DNA denaturation
-
Carlon, E., E. Orlandini, and A. L. Stella. 2002. Roles of stiffness and excluded volume in DNA denaturation. Phys. Rev. Lett. 88: 198101.
-
(2002)
Phys. Rev. Lett.
, vol.88
, pp. 198101
-
-
Carlon, E.1
Orlandini, E.2
Stella, A.L.3
-
36
-
-
34548244050
-
Thermal denaturation of fluctuating DNA driven by bending entropy
-
Palmeri, J., M. Manghi, and N. Destainville. 2007. Thermal denaturation of fluctuating DNA driven by bending entropy. Phys. Rev. Lett. 99: 088103.
-
(2007)
Phys. Rev. Lett.
, vol.99
, pp. 088103
-
-
Palmeri, J.1
Manghi, M.2
Destainville, N.3
-
37
-
-
33749048992
-
A semiflexible chain model of local denaturation in double-stranded DNA
-
Jeon, J.-H., W. Sung, and F. H. Ree. 2006. A semiflexible chain model of local denaturation in double-stranded DNA. J. Chem. Phys. 124: 164905.
-
(2006)
J. Chem. Phys.
, vol.124
, pp. 164905
-
-
Jeon, J.-H.1
Sung, W.2
Ree, F.H.3
-
38
-
-
1642365792
-
Nonlinear dynamics and statistical physics of DNA
-
Peyrard, M. 2004. Nonlinear dynamics and statistical physics of DNA. Nonlinearity. 17: R1-R40.
-
(2004)
Nonlinearity
, vol.17
-
-
Peyrard, M.1
-
39
-
-
6144223864
-
Denaturation of heterogeneous DNA
-
Cule, D., and T. Hwa. 1997. Denaturation of heterogeneous DNA. Phys. Rev. Lett. 79: 2375.
-
(1997)
Phys. Rev. Lett.
, vol.79
, pp. 2375
-
-
Cule, D.1
Hwa, T.2
-
40
-
-
73449125906
-
Force-driven separation of short double-stranded DNA
-
Ho, D., J. L. Zimmermann, ..., H. E. Gaub. 2009. Force-driven separation of short double-stranded DNA. Biophys. J. 97: 3158-3167.
-
(2009)
Biophys. J.
, vol.97
, pp. 3158-3167
-
-
Ho, D.1
Zimmermann, J.L.2
Gaub, H.E.3
-
43
-
-
0035833854
-
Strongly stretched semiflexible extensible polyelectrolytes and DNA
-
Netz, R. R. 2001. Strongly stretched semiflexible extensible polyelectrolytes and DNA. Macromolecules. 34: 7522-7529.
-
(2001)
Macromolecules
, vol.34
, pp. 7522-7529
-
-
Netz, R.R.1
-
44
-
-
0038105985
-
Stretching response of discrete semiflexible polymers
-
Livadaru, L., R. R. Netz, and H. J. Kreuzer. 2003. Stretching response of discrete semiflexible polymers. Macromolecules. 36: 3732-3744.
-
(2003)
Macromolecules
, vol.36
, pp. 3732-3744
-
-
Livadaru, L.1
Netz, R.R.2
Kreuzer, H.J.3
-
45
-
-
33751156715
-
Stiff chains and filaments under tension
-
Odijk, T. 1995. Stiff chains and filaments under tension. Macromolecules. 28: 7016-7018.
-
(1995)
Macromolecules
, vol.28
, pp. 7016-7018
-
-
Odijk, T.1
-
46
-
-
48049112038
-
Impact of loop statistics on the thermodynamics of RNA folding
-
Einert, T. R., P. Näger, ..., R. R. Netz. 2008. Impact of loop statistics on the thermodynamics of RNA folding. Phys. Rev. Lett. 101: 048103.
-
(2008)
Phys. Rev. Lett.
, vol.101
, pp. 048103
-
-
Einert, T.R.1
Näger, P.2
Netz, R.R.3
-
48
-
-
3542992583
-
Polymer network of fixed topology: Renormalization, exact critical exponent γ in two dimensions, and d = 4 - ε
-
Duplantier, B. 1986. Polymer network of fixed topology: renormalization, exact critical exponent γ in two dimensions, and d = 4 - ε. Phys. Rev. Lett. 57: 941-944.
-
(1986)
Phys. Rev. Lett.
, vol.57
, pp. 941-944
-
-
Duplantier, B.1
-
51
-
-
0000640693
-
Singularity analysis of generating functions
-
Flajolet, P., and A. Odlyzko. 1990. Singularity analysis of generating functions. SIAM Discret. Math. 3: 216-240.
-
(1990)
SIAM Discret. Math.
, vol.3
, pp. 216-240
-
-
Flajolet, P.1
Odlyzko, A.2
-
52
-
-
0036106380
-
Salt dependence of the elasticity and overstretching transition of single DNA molecules
-
Wenner, J. R., M. C. Williams, ..., V. A. Bloomfield. 2002. Salt dependence of the elasticity and overstretching transition of single DNA molecules. Biophys. J. 82: 3160-3169.
-
(2002)
Biophys. J.
, vol.82
, pp. 3160-3169
-
-
Wenner, J.R.1
Williams, M.C.2
Bloomfield, V.A.3
-
53
-
-
18044390503
-
Highly stretched single polymers: Atomic-force-microscope experiments versus ab-initio theory
-
Hugel, T., M. Rief, ..., R. R. Netz. 2005. Highly stretched single polymers: atomic-force-microscope experiments versus ab-initio theory. Phys. Rev. Lett. 94: 048301.
-
(2005)
Phys. Rev. Lett.
, vol.94
, pp. 048301
-
-
Hugel, T.1
Rief, M.2
Netz, R.R.3
-
54
-
-
18744407040
-
Stretching single stranded DNA, a model polyelectrolyte
-
Dessinges, M.-N., B. Maier, ..., V. Croquette. 2002. Stretching single stranded DNA, a model polyelectrolyte. Phys. Rev. Lett. 89: 248102.
-
(2002)
Phys. Rev. Lett.
, vol.89
, pp. 248102
-
-
Dessinges, M.-N.1
Maier, B.2
Croquette, V.3
-
55
-
-
1942423138
-
Probing single-stranded DNA conformational flexibility using fluorescence spectroscopy
-
Murphy, M. C., I. Rasnik, ..., T. Ha. 2004. Probing single-stranded DNA conformational flexibility using fluorescence spectroscopy. Biophys. J. 86: 2530-2537.
-
(2004)
Biophys. J.
, vol.86
, pp. 2530-2537
-
-
Murphy, M.C.1
Rasnik, I.2
Ha, T.3
-
56
-
-
0032539693
-
A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics
-
SantaLucia, Jr., J. 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 Jr., J.1
-
57
-
-
0017288713
-
Hyperfine structure in melting profile of bacteriophage A DNA
-
Gotoh, O., Y. Husimi, ..., A. Wada. 1976. Hyperfine structure in melting profile of bacteriophage A DNA. Biopolymers. 15: 655-670.
-
(1976)
Biopolymers
, vol.15
, pp. 655-670
-
-
Gotoh, O.1
Husimi, Y.2
Wada, A.3
-
58
-
-
2542485691
-
Reparametrizing the loop entropy weights: Effect on DNA melting curves
-
Blossey, R., and E. Carlon. 2003. Reparametrizing the loop entropy weights: effect on DNA melting curves. Phys. Rev. E Stat. Nonlin. Soft Matter Phys. 68: 061911.
-
(2003)
Phys. Rev. E Stat. Nonlin. Soft Matter Phys.
, vol.68
, pp. 061911
-
-
Blossey, R.1
Carlon, E.2
|