Date of download: 10/18/2017 Copyright © ASME. All rights reserved. From: Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study J. Comput. Nonlinear Dynam. 2016;12(3):031001-031001-7. doi:10.1115/1.4034834 Figure Legend: The DNA strand represented in this figure is anchored at its lower end while a tensile force applied to its upper end. The bombardment from the surrounding fluid particles tends to bend it, while the applied tension tends to keep it extended. The resulting end-to-end extension of the DNA is always less than its contour length.

Date of download: 10/18/2017 Copyright © ASME. All rights reserved. From: Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study J. Comput. Nonlinear Dynam. 2016;12(3):031001-031001-7. doi:10.1115/1.4034834 Figure Legend: A representation of the dWLC model

Date of download: 10/18/2017 Copyright © ASME. All rights reserved. From: Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study J. Comput. Nonlinear Dynam. 2016;12(3):031001-031001-7. doi:10.1115/1.4034834 Figure Legend: Figure showing the evaluation of αi and γi, the two components of the bend angle τi (see text)

Date of download: 10/18/2017 Copyright © ASME. All rights reserved. From: Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study J. Comput. Nonlinear Dynam. 2016;12(3):031001-031001-7. doi:10.1115/1.4034834 Figure Legend: Comparison between the equilibrium relative extensions obtained from BD simulations (circles) and those obtained from the theoretical estimate (inverted triangles)

Date of download: 10/18/2017 Copyright © ASME. All rights reserved. From: Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study J. Comput. Nonlinear Dynam. 2016;12(3):031001-031001-7. doi:10.1115/1.4034834 Figure Legend: Extensional trajectories obtained from simulations of torsionally relaxed DNA under applied tensions. The value of the equilibrium relative extension increases with the magnitude of the applied tension. For clarity, this plot shows only the first 8 ms of the extensional response.

Date of download: 10/18/2017 Copyright © ASME. All rights reserved. From: Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study J. Comput. Nonlinear Dynam. 2016;12(3):031001-031001-7. doi:10.1115/1.4034834 Figure Legend: The dependence of the timescale for extensional response of torsionally relaxed DNA on the magnitude of applied tension decays exponentially with increasing magnitude of applied tension

Date of download: 10/18/2017 Copyright © ASME. All rights reserved. From: Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study J. Comput. Nonlinear Dynam. 2016;12(3):031001-031001-7. doi:10.1115/1.4034834 Figure Legend: The size of the fluctuations in the end-to-end extensions at equilibrium decay exponentially with increasing magnitude of applied tension. The solid line is the fit of a single exponential function to the data.

Date of download: 10/18/2017 Copyright © ASME. All rights reserved. From: Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study J. Comput. Nonlinear Dynam. 2016;12(3):031001-031001-7. doi:10.1115/1.4034834 Figure Legend: The mean bend angle decreases with increasing magnitude of applied tension. This indicates that the applied tension reduces the influence of entropic forces that cause bending in DNA.

Date of download: 10/18/2017 Copyright © ASME. All rights reserved. From: Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study J. Comput. Nonlinear Dynam. 2016;12(3):031001-031001-7. doi:10.1115/1.4034834 Figure Legend: Influence of hydrodynamics interactions on the timescale for the extensional response of torsionally relaxed DNA under an applied tension. (a) comparison of the timescales for extensional response with (circles) and without (diamonds) hydrodynamic interactions and (b) the difference in timescales decays with increasing magnitude of applied tension.

Date of download: 10/18/2017 Copyright © ASME. All rights reserved. From: Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study J. Comput. Nonlinear Dynam. 2016;12(3):031001-031001-7. doi:10.1115/1.4034834 Figure Legend: Influence of hydrodynamics interactions on the thermal fluctuations at extensional equilibrium: (a) comparison of the standard deviations in extensions at equilibrium with (squares) and without (diamonds) hydrodynamic interactions and (b) comparison between the corresponding mean bend angles