Coarse-Grained Modelling of DNA and DNA Self-Assembly

• Main Author: Ouldridge, Thomas E. (Author)
• Corporate Author: SpringerLink (Online service)
• Format: Electronic eBook
• Language: English
• Published: Berlin, Heidelberg : Springer Berlin Heidelberg : Imprint: Springer, 2012.
• Series: Springer Theses, Recognizing Outstanding Ph.D. Research,
• Subjects: Physics.; Polymers.; Amorphous substances.; Complex fluids.; Biophysics.; Biological physics.; Statistical physics.; Dynamical systems.; Nanotechnology.; Biophysics and Biological Physics.; Polymer Sciences.; Statistical Physics, Dynamical Systems and Complexity.; Soft and Granular Matter, Complex Fluids and Microfluidics.

This thesis presents a novel coarse-grained model of DNA, in which bases are represented as rigid nucleotides. The model is shown to quantitatively reproduce many phenomena, including elastic properties of the double-stranded state, hairpin formation in single strands and hybridization of pairs of s...

Table of Contents:

• A Novel DNA Model
• Methods
• Finite Size Effects
• Structural and Mechanical Properties of Model DNA
• Thermodynamic Properties of Model DNA
• Modelling DNA Tweezers
• Modelling a DNA Walker.