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Journal Articles

New Dynamic Multiwave Solutions of the Fractional Peyrard–Bishop DNA Model

A. Tripathy, S. Sahoo
Journal: Journal of Computational and Nonlinear Dynamics
Publisher: ASME
Article Type: Research-Article
J. Comput. Nonlinear Dynam. October 2023, 18(10): 101005.
Paper No: CND-22-1221
https://doi.org/10.1115/1.4063223
Published Online: September 1, 2023
View Article titled, New Dynamic Multiwave Solutions of the Fractional Peyrard–Bishop DNA Model
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Topics: DNA, Waves
Journal Articles

Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study

Ikenna D. Ivenso
Journal: Journal of Computational and Nonlinear Dynamics
Publisher: ASME
Article Type: Research-Article
J. Comput. Nonlinear Dynam. May 2017, 12(3): 031001.
Paper No: CND-15-1140
https://doi.org/10.1115/1.4034834
Published Online: December 5, 2016
View Article titled, Extensional Response and Equilibrium Kinetics of Torsionally Relaxed dsDNA Under Tension: A Brownian Dynamics Study
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Topics: DNA, Dynamics (Mechanics), Equilibrium (Physics), Simulation, Tension, Fluctuations (Physics), Chain
Journal Articles

Modeling the Abrupt Buckling Transition in dsDNA During Supercoiling

Ikenna D. Ivenso
Journal: Journal of Computational and Nonlinear Dynamics
Publisher: ASME
Article Type: Research-Article
J. Comput. Nonlinear Dynam. November 2016, 11(6): 061003.
Paper No: CND-15-1308
https://doi.org/10.1115/1.4033308
Published Online: June 22, 2016
View Article titled, Modeling the Abrupt Buckling Transition in dsDNA During Supercoiling
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Topics: Buckling, DNA, Dynamics (Mechanics), Simulation, Deformation
Journal Articles

A Model for Highly Strained DNA Compressed Inside a Protein Cavity

Andrew D. Hirsh, Todd D. Lillian, Troy A. Lionberger, Maryna Taranova, Ioan Andricioaei, N. C. Perkins
Journal: Journal of Computational and Nonlinear Dynamics
Publisher: ASME
Article Type: Research-Article
J. Comput. Nonlinear Dynam. July 2013, 8(3): 031001.
Paper No: CND-11-1121
https://doi.org/10.1115/1.4007535
Published Online: October 30, 2012
View Article titled, A Model for Highly Strained DNA Compressed Inside a Protein Cavity
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Topics: Cavities, DNA, Proteins
Journal Articles

Electrostatics and Self-Contact in an Elastic Rod Approximation for DNA

Todd D. Lillian, N. C. Perkins
Journal: Journal of Computational and Nonlinear Dynamics
Publisher: ASME
Article Type: Research Papers
J. Comput. Nonlinear Dynam. January 2011, 6(1): 011008.
https://doi.org/10.1115/1.4002267
Published Online: October 4, 2010
View Article titled, Electrostatics and Self-Contact in an Elastic Rod Approximation for DNA
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Topics: Approximation, DNA, Electrostatics, Equilibrium (Physics), Rotation, Stability
Journal Articles

Resolving the Sequence-Dependent Stiffness of DNA Using Cyclization Experiments and a Computational Rod Model

Sachin Goyal, Noel C. Perkins, Jens-Christian Meiners
Journal: Journal of Computational and Nonlinear Dynamics
Publisher: ASME
Article Type: Research Papers
J. Comput. Nonlinear Dynam. January 2008, 3(1): 011003.
https://doi.org/10.1115/1.2802582
Published Online: November 2, 2007
View Article titled, Resolving the Sequence-Dependent Stiffness of DNA Using Cyclization Experiments and a Computational Rod Model
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Topics: DNA, Stiffness, Torsion