Physics Commons^™

Fast Objective Coupled Planar Illumination Microscopy, Cody Jonathan Greer

Arts & Sciences Electronic Theses and Dissertations

Among optical imaging techniques light sheet fluorescence microscopy stands out as one of the most attractive for capturing high-speed biological dynamics unfolding in three dimensions. The technique is potentially millions of times faster than point-scanning techniques such as two-photon microscopy. This potential is especially poignant for neuroscience applications due to the fact that interactions between neurons transpire over mere milliseconds within tissue volumes spanning hundreds of cubic microns. However current-generation light sheet microscopes are limited by volume scanning rate and/or camera frame rate. We begin by reviewing the optical principles underlying light sheet fluorescence microscopy and the origin of these …

Tunable Electronic And Optical Properties Of Low-Dimensional Materials, Shiyuan Gao

Arts & Sciences Electronic Theses and Dissertations

Two-dimensional (2D) materials with single or a few atomic layers, such as graphene, hexagonal boron nitride (h-BN) and transition metal dichalcogenides (TMDCs), and the heterostructures or one-dimensional (1D) nanostructures they form, have attracted much attention recently as unique platforms for studying many condensed-matter phenomena and holds great potentials for nanoelectronics and optoelectronic applications. Apart from their unique intrinsic properties which has been intensively studied for over a decade by now, they also allow external control of many degrees of freedom, such as electrical gating, doping and layer stacking. In this thesis, I present a theoretical study of the electronic and …

Linking Structure And Dynamics In Metallic Liquids: A Combined Experimental And Molecular Dynamics Approach, Robert Ashcraft

Arts & Sciences Electronic Theses and Dissertations

A major outstanding problem in condensed matter physics is the nature of the glass transition, in which a rapidly cooled liquid can bypass the transition into a crystalline state and the liquid structure is "frozen-in" due to kinetic arrest. To characterize the fundamental features behind this transition the liquid, both in the high temperature (equilibrium) and supercooled state, needs to be better understood. By examining the relationship between structure and dynamics a better characterization of the liquid state and a determination of the mechanisms that are ultimately important for the formation of the glass can be gained. In this dissertation, …

Development And Application Of Hybrid Wray-Agarwal Turbulence Model And Large-Eddy Simulation, Xu Han

McKelvey School of Engineering Theses & Dissertations

Rapid development in computing power in past five decades along with the development and progress in building blocks of Computational Fluid Dynamics (CFD) technology has made CFD an indispensable tool for modern engineering analysis and design of fluid-based products and systems. For CFD analysis, Reynolds-Averaged Navier-Stokes (RANS) equations are currently the most widely used fluid equations in the industry. RANS methods require modeling of turbulence effect (i.e. turbulence modeling) based on empirical relations and therefore often produce low accuracy results for many flows. In recent years, the Large Eddy Simulation (LES) approach has been developed which has shown promise of …

Topics In Pt-Symmetric Quantum Mechanics And Classical Systems, Nima Hassanpour

Arts & Sciences Electronic Theses and Dissertations

Space-time reflection symmetry, or PT symmetry, first proposed in quantum mechanics by Bender and Boettcher in 1998 [2], has become an active research area in fundamental physics. This dissertation contains several research problems which are more or less related to this field of study. After an introduction on complementary topics for the main projects in Chap.1, we discuss about an idea which is originated from the remarkable paper by Chandrasekar et al in Chap.2. They showed that the (second-order constant-coefficient) classical equation of motion for a damped harmonic oscillator can be derived from a Hamiltonian having one degree of freedom. …

Spin Alignment Generated In Inelastic Nuclear Reactions, Daniel Hoff

Arts & Sciences Electronic Theses and Dissertations

The spin alignment of inelastically excited 7Li projectiles, when the target remains in its ground state, was determined through angular-correlation measurements between the breakup fragments of 7Li_ (_ + t). It was found that 7Li_ is largely aligned along the beam axis (longitudinal) in this type of inelastic reaction, regardless of the target. This longitudinal alignment is well described by DWBA calculations, which can be explained by an angular-momentum-excitation-energy mismatch condition. These calculations also explain the longitudinal spin alignment of excited nuclei in several other systems, showing the phenomenon is more general. The experiment involving 7Li was performed at the …

In Vivo Vascular Imaging With Photoacoustic Microscopy, Hsun-Chia Hsu

McKelvey School of Engineering Theses & Dissertations

Photoacoustic (PA) tomography (PAT) has received extensive attention in the last decade for its capability to provide label-free structural and functional imaging in biological tissue with highly scalable spatial resolution and penetration depth. Compared to modern optical modalities, PAT offers speckle-free images and is more sensitive to optical absorption contrast (with 100% relative sensitivity). By implementing different regimes of optical wavelength, PAT can be used to image diverse light-absorbing biomolecules. For example, hemoglobin is of particular interest in the visible wavelength regime owing to its dominant absorption, and lipids and water are more commonly studied in the near-infrared regime.

In …

Instrumentation For Cryogenic Dynamic Nuclear Polarization And Electron Decoupling In Rotating Solids, Faith Joellen Scott

Arts & Sciences Electronic Theses and Dissertations

Dynamic nuclear polarization (DNP) increases the sensitivity of nuclear magnetic resonance (NMR) using the higher polarization of electron radical spins compared to nuclear spins. The addition of electron radicals for DNP to the sample can cause hyperfine broadening, which decreases the resolution of the NMR resonances due to hyperfine interactions between electron and nuclear spins. Electron decoupling has been shown to attenuate the effects of hyperfine coupling in rotating solids. Magic angle spinning (MAS) DNP with electron decoupling requires a high electron Rabi frequency provided by a high-power microwave source such as a frequency-agile gyrotron. This dissertation describes the development …

Dualities, Topological Properties, And Degeneracies Of Classical And Quantum Lattice Models, Seyyed Mohammad Sadegh Vaezi

Arts & Sciences Electronic Theses and Dissertations

We study various nontrivial facets of Ҥegeneracyӭ a concept of paramount importance in numerous physical systems.

In the first part of this thesis, we challenge the folklore that if the ground state degeneracy of a physical system depends on topology then this system must necessarily realize an unconventional, so-called Ҵopological quantumӬ order. To this end, we introduce a classical rendition of the Toric Code model that displays such a topological degeneracy yet exhibits conventional Landau order. As the ground states of this classical system may be distinguished by local measurements, this example illustrates that, on its own, topological degeneracy is …

Simulation Of Black Hole Inner Accretion Disk-Corona And Optimization Of The Hard X-Ray Polarimeter, X-Calibur, Banafsheh Beheshtipour

Arts & Sciences Electronic Theses and Dissertations

Mass accreting stellar mass and supermassive black holes are strong sources of X-rays. The X- ray observations enable studies of the process of black hole accretion and give us information about the spacetime background. In the framework of my thesis work, I have continued the development of a general-relativistic ray-tracing code enabling the simulation of the Comptonization of photons in the hot accretion disk corona. I use the code to investigate the impact of various approximation schemes for modeling the Comptonization finding that a fully relativistic treatment is needed for accurate predictions in the soft and hard X- ray regimes …

Super‐Resolution Imaging Of Amyloid Structures Over Extended Times By Using Transient Binding Of Single Thioflavin T Molecules, Kevin Spehar, Tianben Ding, Yuanzi Sun, Niraja Kedia, Jin Lu, George R. Nahass, Matthew D. Lew, Jan Bieschke

Electrical & Systems Engineering Publications and Presentations

Oligomeric amyloid structures are crucial therapeutic targets in Alzheimer's and other amyloid diseases. However, these oligomers are too small to be resolved by standard light microscopy. We have developed a simple and versatile tool to image amyloid structures by using thioflavin T without the need for covalent labeling or immunostaining. The dynamic binding of single dye molecules generates photon bursts that are used for fluorophore localization on a nanometer scale. Thus, photobleaching cannot degrade image quality, allowing for extended observation times. Super‐resolution transient amyloid binding microscopy promises to directly image native amyloid by using standard probes and record amyloid dynamics …

Imaging The Three-Dimensional Orientation And Rotational Mobility Of Fluorescent Emitters Using The Tri-Spot Point Spread Function, Oumeng Zhang, Jin Lu, Tianben Ding, Matthew D. Lew

Electrical & Systems Engineering Publications and Presentations

Fluorescence photons emitted by single molecules contain rich information regarding their rotational motions, but adapting single-molecule localization microscopy (SMLM) to measure their orientations and rotational mobilities with high precision remains a challenge. Inspired by dipole radiation patterns, we design and implement a Tri-spot point spread function (PSF) that simultaneously measures the three-dimensional orientation and the rotational mobility of dipole-like emitters across a large field of view. We show that the orientation measurements done using the Tri-spot PSF are sufficiently accurate to correct the anisotropy-based localization bias, from 30 nm to 7 nm, in SMLM. We further characterize the emission anisotropy …

Developing Wavefront Shaping Techniques For Focusing Through Highly Dynamic Scattering Media, Ashton Hemphill

McKelvey School of Engineering Theses & Dissertations

One of the prime limiting factors of optical imaging in biological applications is the diffusion of light by tissue, which prevents focusing at depths greater than the optical diffusion limit of ~1 mm in soft tissue. This greatly restricts the utility of optical diagnostic and therapeutic techniques, such as optogenetics, microsurgery, optical tweezing, and phototherapy of deep tissue, which require focused light in order to function. Wavefront shaping extends the depth at which optical focusing may be achieved by compensating for phase distortions induced by scattering, allowing for focusing through constructive interference.

However, due to physiological motion, scattering of light …

Deuterium Mas Nmr Studies Of Mg-Ti Deuteride Formed During High Pressure Ball Milling, Samuel Emery

Arts & Sciences Electronic Theses and Dissertations

Magnesium hydride has long been considered a candidate onboard hydrogen storage material for hydrogen fuel cell powered vehicles due to its low cost, abundance (of magnesium metal), and high hydrogen content (7.6 wt%). However, its use has been limited by the poor kinetics and thermodynamics of the reversible hydriding/dehydriding reaction. Improvements to hydrogen uptake and release have been previously demonstrated when Mg is alloyed with Sc. The resulting MgSc-hydride adopts a cubic, fluorite crystal structure (as opposed to the rutile, tetragonal structure for bulk MgH2) that exhibits a significantly lower activation energy for thermally driven hydrogen motion. However, Sc is …

Novel Sensing Mechanisms For Chemical And Bio-Sensing Using Whispering Gallery Mode Microresonators, He Huang

McKelvey School of Engineering Theses & Dissertations

Due to their ultra-high quality factor and small mode volume, whispering gallery mode (WGM) microresonators have proven to have exceptional sensing capabilities, with single particle level sensitivity to virions, proteins, and nucleic acids. Current sensing mechanisms rely on measuring the changes in the transmission spectrum of the resonator upon adsorption of the analyte on the surface of the resonator, appearing as either shift, splitting, or broadening of the resonance mode, all of which measure the polarizability of adsorbed analytes. In this dissertation, we present two new sensing mechanisms for WGM microresonators: the measurement of a dynamic chemical reaction around the …

Fluorescence Guided Tumor Imaging: Foundations For Translational Applications, Jessica P. Miller

McKelvey School of Engineering Theses & Dissertations

Optical imaging for medical applications is a growing field, and it has the potential to improve medical outcomes through its increased sensitivity and specificity, lower cost, and small instrumentation footprint as compared to other imaging modalities. The method holds great promise, ranging from direct clinical use as a diagnostic or therapeutic tool, to pre-clinical applications for increased understanding of pathology. Additionally, optical imaging uses non-ionizing radiation which is safe for patients, so it can be used for repeated imaging procedures to monitor therapy, guide treatment, and provide real-time feedback. The versatile features of fluorescence-based optical imaging make it suited for …

Developing Photoacoustic Tomography Devices For Translational Medicine And Basic Science Research, Tsz Wai Wong

McKelvey School of Engineering Theses & Dissertations

Photoacoustic (PA) tomography (PAT) provides volumetric images of biological tissue with scalable spatial resolutions and imaging depths, while preserving the same imaging contrast—optical absorption. Taking the advantage of its 100% sensitivity to optical absorption, PAT has been widely applied in structural, functional, and molecular imaging, with both endogenous and exogenous contrasts, at superior depths than pure optical methods. Intuitively, hemoglobin has been the most commonly studied biomolecule in PAT due to its strong absorption in the visible wavelength regime.

One of the main focuses of this dissertation is to investigate an underexplored wavelength regime—ultraviolet (UV), which allows us to image …

Quantum Fields In Extreme Backgrounds, Leandro Medina De Oliveira

Arts & Sciences Electronic Theses and Dissertations

Quantum field theories behave in interesting and nontrivial ways in the presence of intense electric and/or magnetic fields. Describing such behavior correctly, particularly at finite (nonzero) temperature and density, is of importance for particle physics, nuclear physics, astrophysics, condensed matter physics, and cosmology. Incorporating these conditions as external parameters also provides useful probes into the nonperturbative structure of gauge theories.

In this work, formalism for describing matter in a variety of extreme conditions is developed and implemented. We develop several expansions of one-loop finite temperature effects for spinor particles in the presence of magnetic fields, including the effects of confinement, …

Lattice Scales From Gradient Flow And Chiral Analysis On The Milc Collaboration's Hisq Ensembles, Nathan Joseph Brown

Arts & Sciences Electronic Theses and Dissertations

The interactions of quarks and gluons form most of the visible matter around us. Yet, extracting precise predictions from the field theory describing them, Quantum Chromodynamics (QCD), is notoriously difficult. By simulating the QCD interaction on a Euclidean space time lattice, the field theory can be regularized non-perturbatively and familiar statistical techniques from classical statistical mechanics can be applied. Then, by systematically improving each component of the process, high precision results can be obtained. Some of the possible components to be improved include the discretization of the continuum action, the determination of the lattice scale(s), the generation of gauge field …

Numerical Simulation Of A High Strain Rate Biaxial Compression Apparatus, Michael Lagieski

McKelvey School of Engineering Theses & Dissertations

Few experimental methods today are capable of exploring the strength of materials at high strain rates (10⁵ s^-1). Those that are capable, such as the Split Hopkinson Bar, Taylor Anvil and Plate Impact suffer from instability and are generally limited to one dimensional wave propagation. Of particular interest is material response under biaxial compression, similar to that seen in inertial confinement fusion. Laser fusion fuel pellets typically undergo large strain rates as well as plastic deformation and non-linear behavior. This work briefly outlines an experimental procedure designed to replicate these large strain rates under biaxial compression using …

Measuring 3d Molecular Orientation And Rotational Mobility Using A Tri-Spot Point Spread Function, Oumeng Zhang, Tianben Ding, Jin Lu, Hesam Mazidi, Matthew D. Lew

Electrical & Systems Engineering Publications and Presentations

We present a method to measure the molecular orientation and rotational mobility of single-molecule emitters by designing and implementing a Tri-spot point spread function. It can measure all degrees of freedom related to molecular orientation and rotational mobility. Its design is optimized by maximizing the theoretical limit of its measurement precision. We evaluate the precision and accuracy of the Tri-spot PSF by measuring the orientation and effective rotational mobility of single fluorescent molecules embedded in a polymer matrix.