-
1
-
-
0020373595
-
Nucleic Acid Junctions and Lattices
-
Seeman, N. C. Nucleic Acid Junctions and Lattices J. Theor. Biol. 1982, 99, 237-247
-
(1982)
J. Theor. Biol.
, vol.99
, pp. 237-247
-
-
Seeman, N.C.1
-
2
-
-
0038497542
-
Molecular Structure of Nucleic Acids
-
Watson, J. D.; Crick, F. H. C. Molecular Structure of Nucleic Acids Nature 1953, 171, 737-738
-
(1953)
Nature
, vol.171
, pp. 737-738
-
-
Watson, J.D.1
Crick, F.H.C.2
-
4
-
-
83555174809
-
Challenges and Opportunities for Structural DNA Nanotechnology
-
Pinheiro, A. V.; Han, D.; Shih, W. M.; Yan, H. Challenges and Opportunities for Structural DNA Nanotechnology Nat. Nanotechnol. 2011, 6, 763-772
-
(2011)
Nat. Nanotechnol.
, vol.6
, pp. 763-772
-
-
Pinheiro, A.V.1
Han, D.2
Shih, W.M.3
Yan, H.4
-
6
-
-
84864262701
-
Studying the Structural Dynamics of Bipedal DNA Motors with Single-Molecule Fluorescence Spectroscopy
-
Masoud, R.; Tsukanov, R.; Tomov, T. E.; Plavner, N.; Liber, M.; Nir, E. Studying the Structural Dynamics of Bipedal DNA Motors with Single-Molecule Fluorescence Spectroscopy ACS Nano 2012, 6, 6272-6283
-
(2012)
ACS Nano
, vol.6
, pp. 6272-6283
-
-
Masoud, R.1
Tsukanov, R.2
Tomov, T.E.3
Plavner, N.4
Liber, M.5
Nir, E.6
-
8
-
-
33847609597
-
Thermodynamic Analysis of Interacting Nucleic Acid Strands
-
Dirks, R. M.; Bois, J. S.; Schaeffer, J. M.; Winfree, E.; Pierce, N. A. Thermodynamic Analysis of Interacting Nucleic Acid Strands SIAM Rev. 2007, 29, 65-88
-
(2007)
SIAM Rev.
, vol.29
, pp. 65-88
-
-
Dirks, R.M.1
Bois, J.S.2
Schaeffer, J.M.3
Winfree, E.4
Pierce, N.A.5
-
9
-
-
77955204651
-
Self-Assembly of Three-Dimensional Prestressed Tensegrity Structures from DNA
-
Liedl, T.; Högberg, B.; Tytell, J.; Ingbe, D. E.; Shih, W. M. Self-Assembly of Three-Dimensional Prestressed Tensegrity Structures from DNA Nat. Nanotechnol. 2010, 5, 520-524
-
(2010)
Nat. Nanotechnol.
, vol.5
, pp. 520-524
-
-
Liedl, T.1
Högberg, B.2
Tytell, J.3
Ingbe, D.E.4
Shih, W.M.5
-
10
-
-
70450248170
-
A Systematic Molecular Dynamics Study of Nearest-Neighbor Effects on Base Pair and Base Pair Step Conformations and Fluctuations in B-DNA
-
Lavery, R.; Zakrzewska, K.; Beveridge, D.; Bishop, T. C.; Case, D. A.; Cheatham, T., III; Dixit, S.; Jayaram, B.; Lankas, F.; Laughton, C. et al. A Systematic Molecular Dynamics Study of Nearest-Neighbor Effects on Base Pair and Base Pair Step Conformations and Fluctuations in B-DNA Nucleic Acids Res. 2010, 38, 299-313
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 299-313
-
-
Lavery, R.1
Zakrzewska, K.2
Beveridge, D.3
Bishop, T.C.4
Case, D.A.5
Cheatham Iii, T.6
Dixit, S.7
Jayaram, B.8
Lankas, F.9
Laughton, C.10
-
11
-
-
79952091255
-
Structural, Mechanical and Thermodynamic Properties of a Coarse-Grained Model of DNA
-
Ouldridge, T. E.; Louis, A. A.; Doye, J. P. K. Structural, Mechanical and Thermodynamic Properties of a Coarse-Grained Model of DNA J. Chem. Phys. 2011, 134, 085101
-
(2011)
J. Chem. Phys.
, vol.134
, pp. 085101
-
-
Ouldridge, T.E.1
Louis, A.A.2
Doye, J.P.K.3
-
12
-
-
67749084297
-
Mechanism for a Directional, Processive and Reversible DNA Motor
-
Bath, J.; Green, S. J.; Allan, K. E.; Turberfield, A. J. Mechanism for a Directional, Processive and Reversible DNA Motor Small 2009, 5, 1513-1516
-
(2009)
Small
, vol.5
, pp. 1513-1516
-
-
Bath, J.1
Green, S.J.2
Allan, K.E.3
Turberfield, A.J.4
-
13
-
-
3543133526
-
Using DNA to Power Nanostructures
-
Kluwer: Dordrecht, The Netherlands
-
Yurke, B.; Mills, A. Using DNA to Power Nanostructures. In Genetic Programming and Evolvable Machines; Kluwer: Dordrecht, The Netherlands, 2003; Vol. 4, pp 111-122.
-
(2003)
Genetic Programming and Evolvable Machines
, vol.4
, pp. 111-122
-
-
Yurke, B.1
Mills, A.2
-
14
-
-
0034632783
-
A DNA-Fueled Molecular Machine Made of DNA
-
Yurke, B.; Turberfield, A. J.; Mills, A. P.; Simmel, F. C.; Neumann, J. A DNA-Fueled Molecular Machine Made of DNA Nature 2000, 406, 605-608
-
(2000)
Nature
, vol.406
, pp. 605-608
-
-
Yurke, B.1
Turberfield, A.J.2
Mills, A.P.3
Simmel, F.C.4
Neumann, J.5
-
15
-
-
38949175344
-
Reconfigurable, Braced, Three-Dimensional DNA Nanostructures
-
Goodman, R. P.; Heilemann, M.; Doose, S.; Erben, C. M.; Kapanidis, A. N.; Turberfield, A. J. Reconfigurable, Braced, Three-Dimensional DNA Nanostructures Nat. Nanotechnol. 2008, 3, 93-96
-
(2008)
Nat. Nanotechnol.
, vol.3
, pp. 93-96
-
-
Goodman, R.P.1
Heilemann, M.2
Doose, S.3
Erben, C.M.4
Kapanidis, A.N.5
Turberfield, A.J.6
-
16
-
-
65549170920
-
Self-Assembly of a Nanoscale DNA Box with a Controllable Lid
-
Andersen, E. S.; Dong, M.; Nielsen, M. M.; Jahn, K.; Subramani, R.; Mamdouh, W.; Golas, M. M.; Sander, B.; Stark, H.; Oliveira, C. L. P. et al. Self-Assembly of a Nanoscale DNA Box with a Controllable Lid Nature 2009, 459, 73-76
-
(2009)
Nature
, vol.459
, pp. 73-76
-
-
Andersen, E.S.1
Dong, M.2
Nielsen, M.M.3
Jahn, K.4
Subramani, R.5
Mamdouh, W.6
Golas, M.M.7
Sander, B.8
Stark, H.9
Oliveira, C.L.P.10
-
17
-
-
77950285574
-
Loading and Selective Release of Cargo in DNA Nanotubes with Longitudinal Variation
-
Lo, P. K.; Karam, P.; Aldaye, F.; McLaughlin, C. K.; Hamblin, G.; Cosa, G.; Sleiman, H. F. Loading and Selective Release of Cargo in DNA Nanotubes with Longitudinal Variation Nat. Chem. 2010, 2, 319-328
-
(2010)
Nat. Chem.
, vol.2
, pp. 319-328
-
-
Lo, P.K.1
Karam, P.2
Aldaye, F.3
McLaughlin, C.K.4
Hamblin, G.5
Cosa, G.6
Sleiman, H.F.7
-
18
-
-
77957915679
-
Folding and Cutting DNA into Reconfigurable Topological Nanostructures
-
Han, D.; Pal, S.; Liu, Y.; Yan, H. Folding and Cutting DNA into Reconfigurable Topological Nanostructures Nat. Nanotechnol. 2010, 5, 712-717
-
(2010)
Nat. Nanotechnol.
, vol.5
, pp. 712-717
-
-
Han, D.1
Pal, S.2
Liu, Y.3
Yan, H.4
-
19
-
-
4143142965
-
A Precisely Controlled DNA Biped Walking Device
-
Sherman, W. B.; Seeman, N. C. A Precisely Controlled DNA Biped Walking Device Nano Lett. 2004, 4, 1203-1207
-
(2004)
Nano Lett.
, vol.4
, pp. 1203-1207
-
-
Sherman, W.B.1
Seeman, N.C.2
-
20
-
-
4444298687
-
A Synthetic DNA Walker for Molecular Transport
-
Shin, J.-S.; Pierce, N. A. A Synthetic DNA Walker for Molecular Transport J. Am. Chem. Soc. 2004, 126, 10834-10835
-
(2004)
J. Am. Chem. Soc.
, vol.126
, pp. 10834-10835
-
-
Shin, J.-S.1
Pierce, N.A.2
-
21
-
-
33746715874
-
A Free-Running DNA Motor Powered by a Nicking Enzyme
-
Bath, J.; Green, S. J.; Turberfield, A. J. A Free-Running DNA Motor Powered by a Nicking Enzyme Angew. Chem., Int. Ed. 2005, 117, 4432-4435
-
(2005)
Angew. Chem., Int. Ed.
, vol.117
, pp. 4432-4435
-
-
Bath, J.1
Green, S.J.2
Turberfield, A.J.3
-
22
-
-
22744435354
-
A DNAzyme That Walks Processively and Autonomously along a One-Dimensional Track
-
Tian, Y.; He, Y.; Chen, Y.; Yin, P.; Mao, C. A DNAzyme That Walks Processively and Autonomously along a One-Dimensional Track Angew. Chem., Int. Ed. 2005, 44, 4355-4358
-
(2005)
Angew. Chem., Int. Ed.
, vol.44
, pp. 4355-4358
-
-
Tian, Y.1
He, Y.2
Chen, Y.3
Yin, P.4
Mao, C.5
-
23
-
-
79952446957
-
Direct Observation of Stepwise Movement of a Synthetic Molecular Transporter
-
Wickham, S. F. J.; Endo, M.; Katsuda, Y.; Hidaka, K.; Bath, J.; Sugiyama, H.; Turberfield, A. J. Direct Observation of Stepwise Movement of a Synthetic Molecular Transporter Nat. Nanotechnol. 2011, 6, 166-169
-
(2011)
Nat. Nanotechnol.
, vol.6
, pp. 166-169
-
-
Wickham, S.F.J.1
Endo, M.2
Katsuda, Y.3
Hidaka, K.4
Bath, J.5
Sugiyama, H.6
Turberfield, A.J.7
-
24
-
-
0038528527
-
DNA Fuel for Free-Running Nanomachines
-
Turberfield, A. J.; Mitchell, J. C.; Yurke, B.; Mills, A. P.; Blakey, M. I.; Simmel, F. C. DNA Fuel for Free-Running Nanomachines Phys. Rev. Lett. 2003, 90, 118102-118105
-
(2003)
Phys. Rev. Lett.
, vol.90
, pp. 118102-118105
-
-
Turberfield, A.J.1
Mitchell, J.C.2
Yurke, B.3
Mills, A.P.4
Blakey, M.I.5
Simmel, F.C.6
-
25
-
-
64249145393
-
A Bipedal DNA Brownian Motor with Coordinated Legs
-
Omabegho, T.; Sha, R.; Seeman, N. C. A Bipedal DNA Brownian Motor with Coordinated Legs Science 2009, 324, 67-71
-
(2009)
Science
, vol.324
, pp. 67-71
-
-
Omabegho, T.1
Sha, R.2
Seeman, N.C.3
-
26
-
-
57149107978
-
Coordinated Chemomechanical Cycles: A Mechanism for Autonomous Molecular Motion
-
Green, S. J.; Bath, J.; Turberfield, A. J. Coordinated Chemomechanical Cycles: A Mechanism for Autonomous Molecular Motion Phys. Rev. Lett. 2008, 101, 238101
-
(2008)
Phys. Rev. Lett.
, vol.101
, pp. 238101
-
-
Green, S.J.1
Bath, J.2
Turberfield, A.J.3
-
27
-
-
34547659777
-
An Autonomous Polymerization Motor Powered by DNA Hybridization
-
Venkataraman, S.; Dirks, R. M.; Rothemund, P. W. K.; Winfree, E.; Pierce, N. A. An Autonomous Polymerization Motor Powered by DNA Hybridization Nat. Nanotechnol. 2007, 2, 490-494
-
(2007)
Nat. Nanotechnol.
, vol.2
, pp. 490-494
-
-
Venkataraman, S.1
Dirks, R.M.2
Rothemund, P.W.K.3
Winfree, E.4
Pierce, N.A.5
-
28
-
-
79952602838
-
A Programmable Molecular Robot
-
Muscat, R. A.; Bath, J.; Turberfield, A. J. A Programmable Molecular Robot Nano Lett. 2011, 11, 982-987
-
(2011)
Nano Lett.
, vol.11
, pp. 982-987
-
-
Muscat, R.A.1
Bath, J.2
Turberfield, A.J.3
-
29
-
-
78149410682
-
Autonomous Multistep Organic Synthesis in a Single Isothermal Solution Mediated by a DNA Walker
-
He, Y.; Liu, D. R. Autonomous Multistep Organic Synthesis in a Single Isothermal Solution Mediated by a DNA Walker Nat. Nanotechnol. 2010, 5, 778-782
-
(2010)
Nat. Nanotechnol.
, vol.5
, pp. 778-782
-
-
He, Y.1
Liu, D.R.2
-
30
-
-
77952404245
-
A Proximity-Based Programmable DNA Nanoscale Assembly Line
-
Gu, H.; Chao, J.; Xiao, S.; Seeman, N. C. A Proximity-Based Programmable DNA Nanoscale Assembly Line Nature 2010, 465, 202-205
-
(2010)
Nature
, vol.465
, pp. 202-205
-
-
Gu, H.1
Chao, J.2
Xiao, S.3
Seeman, N.C.4
-
31
-
-
17144415297
-
Site-Specific DNA-Nicking Mutants of the Heterodimeric Restriction Endonuclease R.BbvCI
-
Heiter, D. F.; Lunnen, K. D.; Wilson, G. G. Site-Specific DNA-Nicking Mutants of the Heterodimeric Restriction Endonuclease R.BbvCI J. Mol. Biol. 2005, 348, 631-640
-
(2005)
J. Mol. Biol.
, vol.348
, pp. 631-640
-
-
Heiter, D.F.1
Lunnen, K.D.2
Wilson, G.G.3
-
33
-
-
77951569390
-
DNA Nanotweezers Studied with a Coarse-Grained Model of DNA
-
Ouldridge, T. E.; Louis, A. A.; Doye, J. P. K. DNA Nanotweezers Studied with a Coarse-Grained Model of DNA Phys. Rev. Lett. 2010, 104, 178101
-
(2010)
Phys. Rev. Lett.
, vol.104
, pp. 178101
-
-
Ouldridge, T.E.1
Louis, A.A.2
Doye, J.P.K.3
-
34
-
-
84874867110
-
Coarse-Grained Simulations of DNA Overstretching
-
085101
-
Romano, F.; Chakraborty, D.; Doye, J. P. K.; Ouldridge, T. E.; Louis, A. A. Coarse-Grained Simulations of DNA Overstretching. J. Chem. Phys. 2013, 138, 085101.
-
(2013)
J. Chem. Phys.
, vol.138
-
-
Romano, F.1
Chakraborty, D.2
Doye, J.P.K.3
Ouldridge, T.E.4
Louis, A.A.5
-
35
-
-
84866875448
-
DNA Cruciform Arms Nucleate Through a Correlated but Asynchronous Cooperative Mechanism
-
Matek, C.; Ouldridge, T. E.; Levy, A.; Doye, J. P. K.; Louis, A. A. DNA Cruciform Arms Nucleate Through a Correlated but Asynchronous Cooperative Mechanism J. Phys. Chem. B 2012, 116, 11616-11625
-
(2012)
J. Phys. Chem. B
, vol.116
, pp. 11616-11625
-
-
Matek, C.1
Ouldridge, T.E.2
Levy, A.3
Doye, J.P.K.4
Louis, A.A.5
-
36
-
-
84864443758
-
Self-Assembly of Short DNA Duplexes: From a Coarse-Grained Model to Experiments through a Theoretical Link
-
Michele, C. D.; Rovigatti, L.; Bellini, T.; Sciortino, F. Self-Assembly of Short DNA Duplexes: From a Coarse-Grained Model to Experiments through a Theoretical Link Soft Matter 2012, 8, 8388-8398
-
(2012)
Soft Matter
, vol.8
, pp. 8388-8398
-
-
Michele, C.D.1
Rovigatti, L.2
Bellini, T.3
Sciortino, F.4
-
37
-
-
0032539693
-
A Unified View of Polymer, Dumbbell, and Oligonucleotide DNA Nearest-Neighbor Thermodynamics
-
SantaLucia, J., Jr. A Unified View of Polymer, Dumbbell, and Oligonucleotide DNA Nearest-Neighbor Thermodynamics Proc. Natl. Acad. Sci. U.S.A. 1998, 17, 1460-1465
-
(1998)
Proc. Natl. Acad. Sci. U.S.A.
, vol.17
, pp. 1460-1465
-
-
Santalucia Jr., J.1
-
38
-
-
38449086990
-
Avoiding Unphysical Kinetic Traps in Monte Carlo Simulations of Strongly Attractive Particles
-
Whitelam, S.; Geissler, P. L. Avoiding Unphysical Kinetic Traps in Monte Carlo Simulations of Strongly Attractive Particles J. Chem. Phys. 2007, 127, 154101
-
(2007)
J. Chem. Phys.
, vol.127
, pp. 154101
-
-
Whitelam, S.1
Geissler, P.L.2
-
39
-
-
62249221278
-
The Role of Collective Motion in Examples of Coarsening and Self-Assembly
-
Whitelam, S.; Feng, E. H.; Hagan, M. F.; Geissler, P. L. The Role of Collective Motion in Examples of Coarsening and Self-Assembly Soft Matter 2009, 5, 1251-1262
-
(2009)
Soft Matter
, vol.5
, pp. 1251-1262
-
-
Whitelam, S.1
Feng, E.H.2
Hagan, M.F.3
Geissler, P.L.4
-
40
-
-
67649105585
-
Langevin Thermostat for Rigid Body Dynamics
-
Davidchack, R. L.; Handel, R.; Tretyakov, M. V. Langevin Thermostat for Rigid Body Dynamics J. Chem. Phys. 2009, 130, 234101
-
(2009)
J. Chem. Phys.
, vol.130
, pp. 234101
-
-
Davidchack, R.L.1
Handel, R.2
Tretyakov, M.V.3
-
41
-
-
0342929614
-
Nonphysical Sampling Distributions in Monte Carlo Free-Energy Estimation: Umbrella Sampling
-
Torrie, G. M.; Valleau, J. P. Nonphysical Sampling Distributions in Monte Carlo Free-Energy Estimation: Umbrella Sampling J. Comput. Phys. 1977, 23, 187-199
-
(1977)
J. Comput. Phys.
, vol.23
, pp. 187-199
-
-
Torrie, G.M.1
Valleau, J.P.2
-
42
-
-
18144425774
-
Sampling Rare Switching Events in Biochemical Networks
-
Allen, R. J.; Warren, P. B.; ten Wolde, P. R. Sampling Rare Switching Events in Biochemical Networks Phys. Rev. Lett. 2005, 94, 018104
-
(2005)
Phys. Rev. Lett.
, vol.94
, pp. 018104
-
-
Allen, R.J.1
Warren, P.B.2
Ten Wolde, P.R.3
-
43
-
-
72749105901
-
Forward Flux Sampling for Rare Event Simulations
-
Allen, R. J.; Valeriani, C.; ten Wolde, P. R. Forward Flux Sampling for Rare Event Simulations J. Phys.: Condens. Matter 2009, 21, 463102
-
(2009)
J. Phys.: Condens. Matter
, vol.21
, pp. 463102
-
-
Allen, R.J.1
Valeriani, C.2
Ten Wolde, P.R.3
-
44
-
-
62349124337
-
Multiscale Modeling of Emergent Materials: Biological and Soft Matter
-
Murtola, T.; Bunkwer, A.; Vattulainen, I.; Deserno, M. Multiscale Modeling of Emergent Materials: Biological and Soft Matter Phys. Chem. Chem. Phys. 2009, 11, 1869-1892
-
(2009)
Phys. Chem. Chem. Phys.
, vol.11
, pp. 1869-1892
-
-
Murtola, T.1
Bunkwer, A.2
Vattulainen, I.3
Deserno, M.4
-
45
-
-
0033534516
-
Flexibility of Single-Stranded DNA: Use of Gapped Duplex Helices to Determine the Persistence Lengths of Poly(dT) and Poly(dA)
-
Mills, J. B.; Vacano, E.; Hagerman, P. J. Flexibility of Single-Stranded DNA: Use of Gapped Duplex Helices To Determine the Persistence Lengths of Poly(dT) and Poly(dA) J. Mol. Biol. 1999, 285, 245-257
-
(1999)
J. Mol. Biol.
, vol.285
, pp. 245-257
-
-
Mills, J.B.1
Vacano, E.2
Hagerman, P.J.3
-
46
-
-
77957269559
-
Single-Molecule Derivation of Salt Dependent Base-Pair Free Energies in DNA
-
Huguet, J. M.; Bizarro, C. V.; Forns, N.; Smith, S. B.; Bustamante, C.; Ritort, F. Single-Molecule Derivation of Salt Dependent Base-Pair Free Energies in DNA Proc. Natl. Acad. Sci. U.S.A. 2010, 107, 15431-15436
-
(2010)
Proc. Natl. Acad. Sci. U.S.A.
, vol.107
, pp. 15431-15436
-
-
Huguet, J.M.1
Bizarro, C.V.2
Forns, N.3
Smith, S.B.4
Bustamante, C.5
Ritort, F.6
-
47
-
-
0030024985
-
Overstretching B-DNA: The Elastic Response of Individual Double-Stranded and Single-Stranded DNA Molecules
-
Smith, S. B.; Cui, Y.; Bustamante, C. Overstretching B-DNA: The Elastic Response of Individual Double-Stranded and Single-Stranded DNA Molecules Science 1996, 271, 795-799
-
(1996)
Science
, vol.271
, pp. 795-799
-
-
Smith, S.B.1
Cui, Y.2
Bustamante, C.3
|