Coarse-Grained Modelling of DNA and DNA Self-Assembly [electronic resource] /
Ouldridge, Thomas E.author.
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 strands to form duplexes, the first time such a wide range of properties has been captured by a coarse-grained model. The scope and potential of the model is demonstrated by simulating DNA tweezers, an iconic nanodevice, and a two-footed DNA walker — the first time that coarse-grained modelling has been applied to dynamic DNA nanotechnology.
Description based upon print version of record.
Thesis (doctoral)--University of Oxford.
Includes bibliographical references.
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.
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 strands to form duplexes, the first time such a wide range of properties has been captured by a coarse-grained model. The scope and potential of the model is demonstrated by simulating DNA tweezers, an iconic nanodevice, and a two-footed DNA walker — the first time that coarse-grained modelling has been applied to dynamic DNA nanotechnology.
Biophysics.
Biological physics.
Nanotechnology.
Polymers  .
Statistical physics.
Dynamical systems.
Amorphous substances.
Complex fluids.
Biological and Medical Physics, Biophysics.
Nanotechnology.
Polymer Sciences.
Complex Systems.
Soft and Granular Matter, Complex Fluids and Microfluidics.
Statistical Physics and Dynamical Systems.