-
1
-
-
0038497542
-
Molecular structure of nucleic acids; A structure for deoxyribose nucleic acid
-
J.D. Watson, and F.H. Crick Molecular structure of nucleic acids; a structure for deoxyribose nucleic acid Nature 171 1953 737 738
-
(1953)
Nature
, vol.171
, pp. 737-738
-
-
Watson, J.D.1
Crick, F.H.2
-
2
-
-
0020284762
-
Helix geometry and hydration in A-DNA, B-DNA, and Z-DNA
-
R.E. Dickerson, and H.R. Drew P.E. Pjura Helix geometry and hydration in A-DNA, B-DNA, and Z-DNA Cold Spring Harb. Symp. Quant. Biol. 47 1983 13 24
-
(1983)
Cold Spring Harb. Symp. Quant. Biol.
, vol.47
, pp. 13-24
-
-
Dickerson, R.E.1
Drew, H.R.2
Pjura, P.E.3
-
3
-
-
0018370487
-
Helical repeat of DNA in solution
-
J.C. Wang Helical repeat of DNA in solution Proc. Natl. Acad. Sci. USA 76 1979 200 203
-
(1979)
Proc. Natl. Acad. Sci. USA
, vol.76
, pp. 200-203
-
-
Wang, J.C.1
-
4
-
-
0015426225
-
The dimensions and shapes of the furanose rings in nucleic acids
-
S. Arnott, and D.W. Hukins The dimensions and shapes of the furanose rings in nucleic acids Biochem. J. 130 1972 453 465
-
(1972)
Biochem. J.
, vol.130
, pp. 453-465
-
-
Arnott, S.1
Hukins, D.W.2
-
5
-
-
0032556243
-
Free energy analysis of the conformational preferences of A and B forms of DNA in solution
-
B. Jayaram, and D. Sprous D.L. Beveridge Free energy analysis of the conformational preferences of A and B forms of DNA in solution J. Am. Chem. Soc. 120 1998 10629 10633
-
(1998)
J. Am. Chem. Soc.
, vol.120
, pp. 10629-10633
-
-
Jayaram, B.1
Sprous, D.2
Beveridge, D.L.3
-
7
-
-
0002594455
-
Electronic properties, hydrogen bonding, stacking, and cation binding of DNA and RNA bases
-
J. Šponer, J. Leszczynski, and P. Hobza Electronic properties, hydrogen bonding, stacking, and cation binding of DNA and RNA bases Biopolymers 61 2001-2002 3 31
-
(2001)
Biopolymers
, vol.61
, pp. 3-31
-
-
Šponer, J.1
Leszczynski, J.2
Hobza, P.3
-
8
-
-
0000435148
-
Energetics of base pairs in B-DNA in solution: An appraisal of potential functions and dielectric treatments
-
N. Arora, and B. Jayaram Energetics of base pairs in B-DNA in solution: an appraisal of potential functions and dielectric treatments J. Phys. Chem. B 102 1998 6139 6144
-
(1998)
J. Phys. Chem. B
, vol.102
, pp. 6139-6144
-
-
Arora, N.1
Jayaram, B.2
-
10
-
-
0015219906
-
Secondary structure of DNA depends on base composition
-
S. Bram Secondary structure of DNA depends on base composition Nat. New Biol. 232 1971 174 176
-
(1971)
Nat. New Biol.
, vol.232
, pp. 174-176
-
-
Bram, S.1
-
11
-
-
0015494027
-
Polymorphism of natural DNA
-
S. Bram, and P. Tougard Polymorphism of natural DNA Nat. New Biol. 239 1972 128 131
-
(1972)
Nat. New Biol.
, vol.239
, pp. 128-131
-
-
Bram, S.1
Tougard, P.2
-
12
-
-
84860376513
-
B-DNA structure is intrinsically polymorphic: Even at the level of base pair positions
-
T. Maehigashi, and C. Hsiao L.D. Williams B-DNA structure is intrinsically polymorphic: even at the level of base pair positions Nucleic Acids Res. 40 2012 3714 3722
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 3714-3722
-
-
Maehigashi, T.1
Hsiao, C.2
Williams, L.D.3
-
13
-
-
81855183335
-
Altering the electrostatic potential in the major groove: Thermodynamic and structural characterization of 7-deaza-2′-deoxyadenosine:dT base pairing in DNA
-
E.A. Kowal, and M. Ganguly M.P. Stone Altering the electrostatic potential in the major groove: thermodynamic and structural characterization of 7-deaza-2′-deoxyadenosine:dT base pairing in DNA J. Phys. Chem. B 115 2011 13925 13934
-
(2011)
J. Phys. Chem. B
, vol.115
, pp. 13925-13934
-
-
Kowal, E.A.1
Ganguly, M.2
Stone, M.P.3
-
14
-
-
64549099313
-
Circular dichroism and conformational polymorphism of DNA
-
J. Kypr, and I. Kejnovská M. Vorlícková Circular dichroism and conformational polymorphism of DNA Nucleic Acids Res. 37 2009 1713 1725
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. 1713-1725
-
-
Kypr, J.1
Kejnovská, I.2
Vorlícková, M.3
-
15
-
-
27544486140
-
A versatile toolbox for variable DNA functionalization at high density
-
S. Jäger, and G. Rasched M. Famulok A versatile toolbox for variable DNA functionalization at high density J. Am. Chem. Soc 127 2005 15071 15082
-
(2005)
J. Am. Chem. Soc
, vol.127
, pp. 15071-15082
-
-
Jäger, S.1
Rasched, G.2
Famulok, M.3
-
17
-
-
84982060514
-
X-ray investigations of dissolved chain molecules [Rontgenuntersuchung geloster fadenmolekule]
-
O. Kratky, and G. Porod X-ray investigations of dissolved chain molecules [Rontgenuntersuchung geloster fadenmolekule] Recl. Trav. Chim. Pays Bas 68 1949 1106 1122
-
(1949)
Recl. Trav. Chim. Pays Bas
, vol.68
, pp. 1106-1122
-
-
Kratky, O.1
Porod, G.2
-
18
-
-
0028801067
-
Action at a distance: DNA-looping and initiation of transcription
-
K. Rippe, P.H. von Hippel, and J. Langowski Action at a distance: DNA-looping and initiation of transcription Trends Biochem. Sci. 20 1995 500 506
-
(1995)
Trends Biochem. Sci.
, vol.20
, pp. 500-506
-
-
Rippe, K.1
Von Hippel, P.H.2
Langowski, J.3
-
19
-
-
0000545475
-
Ring-closure probabilities for twisted wormlike chains. Application to DNA
-
J. Shimada, and H. Yamakawa Ring-closure probabilities for twisted wormlike chains. Application to DNA Macromolecules 17 1984 689 698
-
(1984)
Macromolecules
, vol.17
, pp. 689-698
-
-
Shimada, J.1
Yamakawa, H.2
-
21
-
-
77957255973
-
Sequence dependence of DNA bending rigidity
-
S. Geggier, and A. Vologodskii Sequence dependence of DNA bending rigidity Proc. Natl. Acad. Sci. USA 107 2010 15421 15426
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 15421-15426
-
-
Geggier, S.1
Vologodskii, A.2
-
23
-
-
0017895903
-
The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides
-
G.S. Manning The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides Q. Rev. Biophys. 11 1978 179 246
-
(1978)
Q. Rev. Biophys.
, vol.11
, pp. 179-246
-
-
Manning, G.S.1
-
24
-
-
0035875112
-
The applications of universal DNA base analogues
-
D. Loakes The applications of universal DNA base analogues Nucleic Acids Res. 29 2001 2437 2447
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 2437-2447
-
-
Loakes, D.1
-
25
-
-
85005722912
-
Molecular dynamics simulations of DNA double helices: Studies of sequence dependence and the role of mismatch pairs in the DNA helix
-
S.N. Rao, U. Chandra Singh, and P.A. Kollman Molecular dynamics simulations of DNA double helices: studies of sequence dependence and the role of mismatch pairs in the DNA helix Isr. J. Chem. 27 1986 189 197
-
(1986)
Isr. J. Chem.
, vol.27
, pp. 189-197
-
-
Rao, S.N.1
Chandra Singh, U.2
Kollman, P.A.3
-
26
-
-
0025647125
-
Identification of hypoxanthine and guanine as the co-repressors for the purine regulon genes of Escherichia coli
-
L.M. Meng, and P. Nygaard Identification of hypoxanthine and guanine as the co-repressors for the purine regulon genes of Escherichia coli Mol. Microbiol. 4 1990 2187 2192
-
(1990)
Mol. Microbiol.
, vol.4
, pp. 2187-2192
-
-
Meng, L.M.1
Nygaard, P.2
-
27
-
-
80052615116
-
The PurR regulon in Escherichia coli K-12 MG1655
-
B.-K. Cho, and S.A. Federowicz B.∅. Palsson The PurR regulon in Escherichia coli K-12 MG1655 Nucleic Acids Res. 39 2011 6456 6464
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 6456-6464
-
-
Cho, B.-K.1
Federowicz, S.A.2
-
28
-
-
0017782451
-
2-aminoadenine is an adenine substituting for a base in S-2L cyanophage DNA
-
M.D. Kirnos, and I.Y. Khudyakov B.F. Vanyushin 2-aminoadenine is an adenine substituting for a base in S-2L cyanophage DNA Nature 270 1977 369 370
-
(1977)
Nature
, vol.270
, pp. 369-370
-
-
Kirnos, M.D.1
Khudyakov, I.Y.2
Vanyushin, B.F.3
-
29
-
-
10044289670
-
Atomic force microscopy study of the structural effects induced by echinomycin binding to DNA
-
Y.D. Tseng, and H. Ge R.M. Henderson Atomic force microscopy study of the structural effects induced by echinomycin binding to DNA J. Mol. Biol. 345 2005 745 758
-
(2005)
J. Mol. Biol.
, vol.345
, pp. 745-758
-
-
Tseng, Y.D.1
Ge, H.2
Henderson, R.M.3
-
30
-
-
28544431620
-
Role of stacking interactions in the binding sequence preferences of DNA bis-intercalators: Insight from thermodynamic integration free energy simulations
-
E. Marco, and A. Negri F. Gago Role of stacking interactions in the binding sequence preferences of DNA bis-intercalators: insight from thermodynamic integration free energy simulations Nucleic Acids Res. 33 2005 6214 6224
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 6214-6224
-
-
Marco, E.1
Negri, A.2
Gago, F.3
-
31
-
-
0032555263
-
The exocyclic groups of DNA modulate the affinity and positioning of the histone octamer
-
M. Buttinelli, and A. Minnock A. Travers The exocyclic groups of DNA modulate the affinity and positioning of the histone octamer Proc. Natl. Acad. Sci. USA 95 1998 8544 8549
-
(1998)
Proc. Natl. Acad. Sci. USA
, vol.95
, pp. 8544-8549
-
-
Buttinelli, M.1
Minnock, A.2
Travers, A.3
-
32
-
-
0030851911
-
Effects of diaminopurine and inosine substitutions on A-tract induced DNA curvature. Importance of the 3′-A-tract junction
-
N.E. Møllegaard, and C. Bailly P.E. Nielsen Effects of diaminopurine and inosine substitutions on A-tract induced DNA curvature. Importance of the 3′-A-tract junction Nucleic Acids Res. 25 1997 3497 3502
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3497-3502
-
-
Møllegaard, N.E.1
Bailly, C.2
Nielsen, P.E.3
-
33
-
-
0036225151
-
Critical effect of the N2 amino group on structure, dynamics, and elasticity of DNA polypurine tracts
-
F. Lankaš, and T.E. Cheatham III J. Šponer Critical effect of the N2 amino group on structure, dynamics, and elasticity of DNA polypurine tracts Biophys. J. 82 2002 2592 2609
-
(2002)
Biophys. J.
, vol.82
, pp. 2592-2609
-
-
Lankaš, F.1
Cheatham III, T.E.2
Šponer, J.3
-
34
-
-
0036293430
-
Contribution of the intrinsic curvature to measured DNA persistence length
-
M. Vologodskaia, and A. Vologodskii Contribution of the intrinsic curvature to measured DNA persistence length J. Mol. Biol. 317 2002 205 213
-
(2002)
J. Mol. Biol.
, vol.317
, pp. 205-213
-
-
Vologodskaia, M.1
Vologodskii, A.2
-
35
-
-
4444221204
-
The influence of DNA stiffness upon nucleosome formation
-
J. Virstedt, and T. Berge A.A. Travers The influence of DNA stiffness upon nucleosome formation J. Struct. Biol. 148 2004 66 85
-
(2004)
J. Struct. Biol.
, vol.148
, pp. 66-85
-
-
Virstedt, J.1
Berge, T.2
Travers, A.A.3
-
36
-
-
84878882098
-
Single molecule analysis of DNA wrapping and looping by a circular 14-mer wheel of the bacteriophage 186 CI repressor
-
H. Wang, and I.B. Dodd L. Finzi Single molecule analysis of DNA wrapping and looping by a circular 14-mer wheel of the bacteriophage 186 CI repressor Nucleic Acids Res. 41 2013 5746 5756
-
(2013)
Nucleic Acids Res.
, vol.41
, pp. 5746-5756
-
-
Wang, H.1
Dodd, I.B.2
Finzi, L.3
-
37
-
-
33845810345
-
High flexibility of DNA on short length scales probed by atomic force microscopy
-
P.A. Wiggins, and T. van der Heijden P.C. Nelson High flexibility of DNA on short length scales probed by atomic force microscopy Nat. Nanotechnol. 1 2006 137 141
-
(2006)
Nat. Nanotechnol.
, vol.1
, pp. 137-141
-
-
Wiggins, P.A.1
Van Der Heijden, T.2
Nelson, P.C.3
-
38
-
-
84871769124
-
Single-molecule kinetics reveal microscopic mechanism by which high-mobility group B proteins alter DNA flexibility
-
M.J. McCauley, and E.M. Rueter M.C. Williams Single-molecule kinetics reveal microscopic mechanism by which high-mobility group B proteins alter DNA flexibility Nucleic Acids Res. 41 2013 167 181
-
(2013)
Nucleic Acids Res.
, vol.41
, pp. 167-181
-
-
McCauley, M.J.1
Rueter, E.M.2
Williams, M.C.3
-
39
-
-
37349067907
-
Elasticity of short DNA molecules: Theory and experiment for contour lengths of 0.6-7 microm
-
Y. Seol, and J. Li M.D. Betterton Elasticity of short DNA molecules: theory and experiment for contour lengths of 0.6-7 microm Biophys. J. 93 2007 4360 4373
-
(2007)
Biophys. J.
, vol.93
, pp. 4360-4373
-
-
Seol, Y.1
Li, J.2
Betterton, M.D.3
-
40
-
-
0018169913
-
Cyanophage S-2L contains DNA with 2,6-diaminopurine substituted for adenine
-
I.Y. Khudyakov, and M.D. Kirnos B.F. Vanyushin Cyanophage S-2L contains DNA with 2,6-diaminopurine substituted for adenine Virology 88 1978 8 18
-
(1978)
Virology
, vol.88
, pp. 8-18
-
-
Khudyakov, I.Y.1
Kirnos, M.D.2
Vanyushin, B.F.3
-
41
-
-
0029938421
-
Thermodynamics of base pairing
-
D.H. Turner Thermodynamics of base pairing Curr. Opin. Struct. Biol. 6 1996 299 304
-
(1996)
Curr. Opin. Struct. Biol.
, vol.6
, pp. 299-304
-
-
Turner, D.H.1
-
42
-
-
84873892798
-
Effect of guanine to inosine substitution on stability of canonical DNA and RNA duplexes: Molecular dynamics thermodynamics integration study
-
M. Krepl, and M. Otyepka J. Šponer Effect of guanine to inosine substitution on stability of canonical DNA and RNA duplexes: molecular dynamics thermodynamics integration study J. Phys. Chem. B 117 2013 1872 1879
-
(2013)
J. Phys. Chem. B
, vol.117
, pp. 1872-1879
-
-
Krepl, M.1
Otyepka, M.2
Šponer, J.3
-
43
-
-
0034654495
-
Factors contributing to aromatic stacking in water: Evaluation in the context of DNA
-
K.M. Guckian, and B.A. Schweitzer E.T. Kool Factors contributing to aromatic stacking in water: evaluation in the context of DNA J. Am. Chem. Soc. 122 2000 2213 2222
-
(2000)
J. Am. Chem. Soc.
, vol.122
, pp. 2213-2222
-
-
Guckian, K.M.1
Schweitzer, B.A.2
Kool, E.T.3
-
44
-
-
77957240284
-
DNA curvature and flexibility in vitro and in vivo
-
J.P. Peters III, and L.J. Maher III DNA curvature and flexibility in vitro and in vivo Q. Rev. Biophys. 43 2010 23 63
-
(2010)
Q. Rev. Biophys.
, vol.43
, pp. 23-63
-
-
Peters III, J.P.1
Maher III, L.J.2
-
45
-
-
78650961101
-
Quantitative methods for measuring DNA flexibility in vitro and in vivo
-
J.P. Peters, and N.A. Becker L.J. Maher III Quantitative methods for measuring DNA flexibility in vitro and in vivo Methods Enzymol. 488 2011 287 335
-
(2011)
Methods Enzymol.
, vol.488
, pp. 287-335
-
-
Peters, J.P.1
Becker, N.A.2
Maher III, L.J.3
-
46
-
-
0036106380
-
Salt dependence of the elasticity and overstretching transition of single DNA molecules
-
J.R. Wenner, and M.C. Williams V.A. Bloomfield Salt dependence of the elasticity and overstretching transition of single DNA molecules Biophys. J. 82 2002 3160 3169
-
(2002)
Biophys. J.
, vol.82
, pp. 3160-3169
-
-
Wenner, J.R.1
Williams, M.C.2
Bloomfield, V.A.3
-
47
-
-
0031047888
-
Stretching DNA with optical tweezers
-
M.D. Wang, and H. Yin S.M. Block Stretching DNA with optical tweezers Biophys. J. 72 1997 1335 1346
-
(1997)
Biophys. J.
, vol.72
, pp. 1335-1346
-
-
Wang, M.D.1
Yin, H.2
Block, S.M.3
-
48
-
-
0000579305
-
DNA persistence length revisited
-
Y. Lu, B. Weers, and N.C. Stellwagen DNA persistence length revisited Biopolymers 61 2001-2002 261 275
-
(2001)
Biopolymers
, vol.61
, pp. 261-275
-
-
Lu, Y.1
Weers, B.2
Stellwagen, N.C.3
-
49
-
-
25844517241
-
Positively charged surfaces increase the flexibility of DNA
-
A. Podestà, and M. Indrieri D. Dunlap Positively charged surfaces increase the flexibility of DNA Biophys. J. 89 2005 2558 2563
-
(2005)
Biophys. J.
, vol.89
, pp. 2558-2563
-
-
Podestà, A.1
Indrieri, M.2
Dunlap, D.3
-
50
-
-
84856748887
-
Do monovalent mobile ions affect DNA's flexibility at high salt content?
-
A. Savelyev Do monovalent mobile ions affect DNA's flexibility at high salt content? Phys. Chem. Chem. Phys. 14 2012 2250 2254
-
(2012)
Phys. Chem. Chem. Phys.
, vol.14
, pp. 2250-2254
-
-
Savelyev, A.1
-
51
-
-
0141566477
-
Fast calculation of van der Waals volume as a sum of atomic and bond contributions and its application to drug compounds
-
Y.H. Zhao, M.H. Abraham, and A.M. Zissimos Fast calculation of van der Waals volume as a sum of atomic and bond contributions and its application to drug compounds J. Org. Chem. 68 2003 7368 7373
-
(2003)
J. Org. Chem.
, vol.68
, pp. 7368-7373
-
-
Zhao, Y.H.1
Abraham, M.H.2
Zissimos, A.M.3
-
52
-
-
33751233867
-
The persistence length of DNA is reached from the persistence length of its null isomer through an internal electrostatic stretching force
-
G.S. Manning The persistence length of DNA is reached from the persistence length of its null isomer through an internal electrostatic stretching force Biophys. J. 91 2006 3607 3616
-
(2006)
Biophys. J.
, vol.91
, pp. 3607-3616
-
-
Manning, G.S.1
-
53
-
-
0030596081
-
Scanning force microscopy of DNA deposited onto mica: Equilibration versus kinetic trapping studied by statistical polymer chain analysis
-
C. Rivetti, M. Guthold, and C. Bustamante Scanning force microscopy of DNA deposited onto mica: equilibration versus kinetic trapping studied by statistical polymer chain analysis J. Mol. Biol. 264 1996 919 932
-
(1996)
J. Mol. Biol.
, vol.264
, pp. 919-932
-
-
Rivetti, C.1
Guthold, M.2
Bustamante, C.3
-
54
-
-
44449087047
-
Single-molecule force spectroscopy: Optical tweezers, magnetic tweezers and atomic force microscopy
-
K.C. Neuman, and A. Nagy Single-molecule force spectroscopy: optical tweezers, magnetic tweezers and atomic force microscopy Nat. Methods 5 2008 491 505
-
(2008)
Nat. Methods
, vol.5
, pp. 491-505
-
-
Neuman, K.C.1
Nagy, A.2
-
55
-
-
0035106406
-
Accurate length determination of DNA molecules visualized by atomic force microscopy: Evidence for a partial B- to A-form transition on mica
-
C. Rivetti, and S. Codeluppi Accurate length determination of DNA molecules visualized by atomic force microscopy: evidence for a partial B- to A-form transition on mica Ultramicroscopy 87 2001 55 66
-
(2001)
Ultramicroscopy
, vol.87
, pp. 55-66
-
-
Rivetti, C.1
Codeluppi, S.2
-
56
-
-
69449096970
-
DNA deformations near charged surfaces: Electron and atomic force microscopy views
-
F.G. Faas, and B. Rieger D.I. Cherny DNA deformations near charged surfaces: electron and atomic force microscopy views Biophys. J. 97 2009 1148 1157
-
(2009)
Biophys. J.
, vol.97
, pp. 1148-1157
-
-
Faas, F.G.1
Rieger, B.2
Cherny, D.I.3
-
57
-
-
77951143318
-
Effect of genomic long-range correlations on DNA persistence length: From theory to single molecule experiments
-
J. Moukhtar, and C. Faivre-Moskalenko A. Arneodo Effect of genomic long-range correlations on DNA persistence length: from theory to single molecule experiments J. Phys. Chem. B 114 2010 5125 5143
-
(2010)
J. Phys. Chem. B
, vol.114
, pp. 5125-5143
-
-
Moukhtar, J.1
Faivre-Moskalenko, C.2
Arneodo, A.3
-
58
-
-
22144455993
-
Single-molecule measurements of the persistence length of double-stranded RNA
-
J.A. Abels, and F. Moreno-Herrero N.H. Dekker Single-molecule measurements of the persistence length of double-stranded RNA Biophys. J. 88 2005 2737 2744
-
(2005)
Biophys. J.
, vol.88
, pp. 2737-2744
-
-
Abels, J.A.1
Moreno-Herrero, F.2
Dekker, N.H.3
|