DMREF: Computational Design Principles for Functional DNA-based Materials

DMREF: Computational Design Principles for Functional DNA-based Materials DMREF: Computational Design Principles for Functional DNA-based Materials Statement of Work Arizona State University The Yan group from ASU will collaborate with the Bathe group at MIT and Yin group at Harvard to study the structural, thermodynamic and kinetic properties of various DNA nanostructures with a focus on scaffolded DNA origami structures. The Yan group will contribute to the following specific aims: Aim 1: Structure and mechanical properties of DNA Origami systems 1-1: Effect of crossover positions on structural conformation and mechanical properties 1-2: Effect of nick positions on structural conformation and mechanical properties 1-3: Effect of electrostatics on structural conformation and mechanical properties Aim 2: Thermodynamics of DNA Origami systems 1-1: Effect of hybridization free energy and thermodynamics [thermal stability and formation temperature with applications in isothermal assembly) 1-2: Effect of Configurational entropy on thermodynamics 1-3: Effect of mechanical free energy on thermodynamics Aim 3: Kinetics of DNA Origami systems 3-1: Effect of binding free energy (length and sequence of the strands) on kinetics of the assembly 3-2: Effect of ionic environment on kinetics of the assembly 3-3: Effect of temperature on kinetics of the assembly