Engineering Commons^™

Kinetic Control Of Nucleic Acid Strand Displacement Reactions, Xiaoping Olson

Boise State University Theses and Dissertations

Nucleic acids are information-dense, programmable polymers that can be engineered into primers, probes, molecular motors, and signal amplification circuits for computation, diagnostic, and therapeutic purposes. Signal amplification circuits increase the signal-to-noise ratio of target nucleic acids in the absence of enzymes and thermal cycling. Amplification is made possible via toehold mediated strand displacement – a process where one nucleic acid strand binds to a nucleation site on a complementary helix, which then displaces one of the two strands in a nucleic acid complex. When compared to polymerase chain reactions (PCR), the sensitivity and stability of toehold-mediated strand displacement reactions suffer …

Coarse-Grained Simulations Of The Self-Assembly Of Dna-Linked Gold Nanoparticle Building Blocks, Charles Wrightsman Armistead

Graduate Theses and Dissertations

The self-assembly of nanoparticles (NPs) of varying shape, size, and composition for the purpose of constructing useful nanoassemblies with tailored properties remains challenging. Although progress has been made to design anisotropic building blocks that exhibit the required control for the precise placement of various NPs within a defined arrangement, there still exists obstacles in the technology to maximize the programmability in the self-assembly of NP building blocks. Currently, the self-assembly of nanostructures involves much experimental trial and error. Computational modeling is a possible approach that could be utilized to facilitate the purposeful design of the self-assembly of NP building blocks …

Design, Synthesis, And Characterization Of Nanoscale Optical Devices Using Dna Directed Self-Assembly, William Peter Klein

Boise State University Theses and Dissertations

Near-field energy transfer has great potential for use in nanoscale communications, biosensing, and light harvesting photonic devices. However, the light collecting and energy transferring efficiency of current devices is poor, resulting in few commercially available applications. Current human-made light harvesting devices lack the benefits of natural selection. Natural systems are typically highly optimized and highly efficient. For example, transfer efficiency in photosynthesis is greater than 90%.

In this work, two classes of optical devices were designed, synthesized, and characterized: Plasmonic waveguides and FRET-based photonic devices. In the case of plasmonic waveguides, a multi-scaffold DNA origami synthesis method was developed to …