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Thomas Ouldridge
Thomas Ouldridge
Department of Bioengineering, Imperial College London
Verifisert e-postadresse på imperial.ac.uk - Startside
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On the biophysics and kinetics of toehold-mediated DNA strand displacement
N Srinivas, TE Ouldridge, P Šulc, JM Schaeffer, B Yurke, AA Louis, ...
Nucleic acids research 41 (22), 10641-10658, 2013
5562013
Structural, mechanical, and thermodynamic properties of a coarse-grained DNA model
TE Ouldridge, AA Louis, JPK Doye
The Journal of chemical physics 134 (8), 085101, 2011
5252011
Sequence-dependent thermodynamics of a coarse-grained DNA model
P Šulc, F Romano, TE Ouldridge, L Rovigatti, JPK Doye, AA Louis
The Journal of chemical physics 137 (13), 135101, 2012
3642012
Introducing improved structural properties and salt dependence into a coarse-grained model of DNA
BEK Snodin, F Randisi, M Mosayebi, P Šulc, JS Schreck, F Romano, ...
The Journal of chemical physics 142 (23), 234901, 2015
3612015
DNA hybridization kinetics: zippering, internal displacement and sequence dependence
TE Ouldridge, P Šulc, F Romano, JPK Doye, AA Louis
Nucleic acids research 41 (19), 8886-8895, 2013
2702013
Programmable energy landscapes for kinetic control of DNA strand displacement
RRF Machinek, TE Ouldridge, NEC Haley, J Bath, AJ Turberfield
Nature Communications 5, 2014
2392014
Coarse-graining DNA for simulations of DNA nanotechnology
JPK Doye, TE Ouldridge, AA Louis, F Romano, P Šulc, C Matek, ...
Physical Chemistry Chemical Physics 15 (47), 20395-20414, 2013
2372013
DNA nanotweezers studied with a coarse-grained model of DNA
TE Ouldridge, AA Louis, JPK Doye
Physical Review Letters 104 (17), 178101, 2010
2282010
Guiding the folding pathway of DNA origami
KE Dunn, F Dannenberg, TE Ouldridge, M Kwiatkowska, AJ Turberfield, ...
Nature, 2015
2022015
A nucleotide-level coarse-grained model of RNA
P Šulc, F Romano, TE Ouldridge, JPK Doye, AA Louis
The Journal of chemical physics 140 (23), 235102, 2014
1632014
Fundamental Limits to Cellular Sensing
PR ten Wolde, NB Becker, TE Ouldridge, A Mugler
Journal of Statistical Physics 162 (5), 1395-1424, 2016
1202016
Force-Induced Rupture of a DNA Duplex: From Fundamentals to Force Sensors
M Mosayebi, AA Louis, JPK Doye, TE Ouldridge
ACS nano, 2015
1142015
Thermodynamics of Computational Copying in Biochemical Systems
TE Ouldridge, CC Govern, PR ten Wolde
Physical Review X 7 (2), 021004, 2017
1122017
Optimizing DNA nanotechnology through coarse-grained modeling: a two-footed DNA walker
TE Ouldridge, RL Hoare, AA Louis, JPK Doye, J Bath, AJ Turberfield
ACS nano 7 (3), 2479-2490, 2013
1102013
Design of hidden thermodynamic driving for non-equilibrium systems via mismatch elimination during DNA strand displacement
NEC Haley, TE Ouldridge, IM Ruiz, A Geraldini, AA Louis, J Bath, ...
Nature Communications 11 (1), 1-11, 2020
1002020
Direct simulation of the self-assembly of a small DNA origami
BEK Snodin, F Romano, L Rovigatti, TE Ouldridge, AA Louis, JPK Doye
ACS nano 10 (2), 1724-1737, 2016
1002016
Modeling DNA-strand displacement reactions in the presence of base-pair mismatches
P Irmisch, TE Ouldridge, R Seidel
Journal of the American Chemical Society 142 (26), 11451-11463, 2020
942020
Plectoneme tip bubbles: Coupled denaturation and writhing in supercoiled DNA
C Matek, TE Ouldridge, JPK Doye, AA Louis
Scientific reports 5, 2015
932015
Coarse-grained simulations of DNA overstretching
F Romano, D Chakraborty, JPK Doye, TE Ouldridge, AA Louis
The Journal of chemical physics 138 (8), 085101, 2013
902013
Extracting bulk properties of self-assembling systems from small simulations
TE Ouldridge, AA Louis, JPK Doye
Journal of Physics: Condensed Matter 22 (10), 104102, 2010
732010
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Artikler 1–20