Physical Sciences and Mathematics Commons^™

Synthesis Of Acceptors For Use In Donor-Acceptor Copolymers And Characterization Of These Polymers, William D. Walker

Honors Theses

In this thesis, a selenium-derivatized acceptor was synthesized to examine the heavy atom effects of selenium on the position of the frontier molecular orbitals (HOMO/LUMO band gap) as opposed to sulfur in a donor-acceptor copolymer for use in light harvesting and detection applications. Over the course of this research, standard operating protocols for ultraviolet-visible (UV-Vis-NIR) and Fourier transform infrared (FT-IR) spectroscopies, as well as cyclic voltammetry (CV) characterization techniques were established. Once synthesized, the polymers were characterized through use of the established characterization protocols. The selenium-derivatized polymer exhibited a bathochromic shift compared to the sulfur analogue, with a solid-state absorption …

Detection Of Acoustic Sources Using Time-Reversal Methods, Grant E. Tingstrom

Honors Theses

The goal of this research is to characterize the impact of using an equivalent-fluid method for a solid seabed on the use of time reversal procedures for detecting the origin location of an emitted sound. There are two different ways of modeling how sound propagates through water: modeling sound as a ray and modeling sound as a wave. It is easier to model the propagation of sound through water with a ray model; using a ray model allows for the collection of grazing angles with respect to the bottom. These will be important when determining bottom intensity loss of the …

Sonifying Git History, Kevin J. North

School of Computing: Dissertations, Theses, and Student Research

Version control is a technique that software developers use in industry to manage their source code artifacts. One benefit of using version control is that it produces a history of every change made to a codebase, which developers frequently analyze in order to aid the software development process. However, version control history contains highly multidimensional and temporal data. State of the art techniques can show several of these dimensions, but they cannot show a large number of dimensions simultaneously without becoming difficult to understand. An alternative technique to understand temporal data with high dimensionality is sonification. Sonification maps information to …

Synthesis Of Microgel Polymers As Catalysts, Hannah N. Miller

Chemistry & Biochemistry Undergraduate Honors Theses

New developments in organic synthesis show promise in achieving the best catalytic properties for the hydrolysis of glycosidic bonds through microgel polymers and transition metal complexes. A monomer mix of ethylene glycol dimethacrylate, butyl acrylate, and styrene form miniemulsion polymers after sonication and exposure to UV light. Gravimetrical analysis is used to determine the most suitable polymerization conditions by performing experiments at varying pH values, temperatures, monomer amounts, initiator amounts, and lamp heights. The final data show that the best polymerization conditions are a pH of 10.50 at 0°C with a high monomer ratio, 20% initiator amount, and a lamp …

Structural Variations Involving S-Block Metal Pyrazolates, Joshua Woods

Renée Crown University Honors Thesis Projects - All

Alkali and alkaline earth metal organometallics have been sought after for a variety of applications such as in electronic devices produced by novel metal organic chemical vapor deposition precursors, catalysts and as synthetic reagents. Despite significant advances in synthetic techniques, the chemistry of the highly reactive s-block metals is still relatively unexplored. It is difficult to predict properties, structure and binding modes of these compounds due to a number of factors including enhanced reactivity and tendency to aggregation due to the large metal diameter. On the other hand, many of the s-block metals are earth abundant and environmentally friendly, …

The Use Of Isomeric Testosterone Dimers To Explore Allosteric Effects In Substrate Binding To Cytochrome P450 Cyp3a4, Ilia G. Denisov, Piotr J. Mak, Yelena V. Grinkova, Dominic Bastien, Gervais Bérubé, Stephen G. Sligar, James R. Kincaid

Chemistry Faculty Research and Publications

Abstract: Cytochrome P450 CYP3A4 is the main drug-metabolizing enzyme in the human liver, being responsible for oxidation of 50% of all pharmaceuticals metabolized by human P450 enzymes. Possessing a large substrate binding pocket, it can simultaneously bind several substrate molecules and often exhibits a complex pattern of drug–drug interactions. In order to better understand structural and functional aspects of binding of multiple substrate molecules to CYP3A4 we used resonance Raman and UV–VIS spectroscopy to document the effects of binding of synthetic testosterone dimers of different configurations, cis-TST₂ and trans-TST₂. We directly demonstrate that the binding …

The Ezsmt Solver: Constraint Answer Set Solving Meets Smt, Benjamin Susman

Student Work

Constraint answer set programming is a promising research direction that integrates answer set programming with constraint processing. It is often informally related to the field of Satisfiability Modulo Theories. Yet, the exact formal link is obscured as the terminology and concepts used in these two research areas differ. In this thesis, by connecting these two areas, we begin the cross-fertilization of not only of the theoretical foundations of both areas but also of the existing solving technologies. We present the system EZSMT, one of the first solvers of this nature, which is able to take a large class of constraint …

Patterns And Signals Of Biology: An Emphasis On The Role Of Post Translational Modifications In Proteomes For Function And Evolutionary Progression, Oliver Bonham-Carter

Student Work

After synthesis, a protein is still immature until it has been customized for a specific task. Post-translational modifications (PTMs) are steps in biosynthesis to perform this customization of protein for unique functionalities. PTMs are also important to protein survival because they rapidly enable protein adaptation to environmental stress factors by conformation change. The overarching contribution of this thesis is the construction of a computational profiling framework for the study of biological signals stemming from PTMs associated with stressed proteins. In particular, this work has been developed to predict and detect the biological mechanisms involved in types of stress response with …

Exogenous Polyunsaturated Fatty Acid (Pufa) Scavenging Affects Phospholipid Profiles And Virulence Phenotypes In Vibrio Cholerae And Vibrio Parahaemolyticus, Anna Moravec

Honors Theses

AIM: This research had two primary objectives. First, this study sought to determine whether or not exposing Vibrio cholerae and Vibrio parahaemolyticus to polyunsaturated fatty acids (PUFAs) would lead to changes in their respective phospholipid profiles. Secondly, if membrane remodeling occurred, this study sought to determine the impact of membrane modifications on bacterial fitness by evaluating their effect on membrane permeability, biofilm formation, and response to stresses. METHODS: The Bligh and Dyer method was used to extract bacterial lipids, which were subsequently analyzed via thin-layer chromatography (TLC). The effect of fatty acids on bacterial fitness was assessed using stress, biofilm, …

A Fractional Boundary Value Problem, Grant Yost

Honors Theses

We consider a fractional boundary value problem with various boundary conditions. This boundary value problem has two components, one fractional derivative of alpha degree with alpha between n-1 and n, and a fractional derivative of beta degree with beta between 0 and n-2. We prove existence and uniqueness of solutions, and show some examples that were found using a MATLAB simulation.

Measuring Phytophthora Resistance Phenotypes In Segregating Testcross Families Of Hybrid American Chestnut Trees, Anna C. Robinson

Honors Theses

Phytophthora root rot (PRR), caused by the oomycete Phytophthora cinnamomi Rands, is a formidable obstacle to the restoration of Castanea dentata Marsh. commonly known as the American chestnut. Genetic resistance to PRR has been observed in Asian species of chestnut including C. mollissima Blume, and in interspecific hybrids between C. mollissima and C. dentata. We hypothesized that root rot resistance alleles would segregate in a 1:1 ratio within progeny of crosses between PRR resistant F1 hybrids and PRR-susceptible American chestnut trees (first-backcrosses), and that PRR resistance could be successfully passed down to all families of first-backcross hybrids. To test these …

The Simple Zeros Of The Riemann Zeta-Function, Melissa N. Miller

Honors Theses

There have been many tables of primes produced since antiquity. In 348 BC Plato studied the divisors of the number 5040. In 1202 Fibonacci gave an example with a list of prime numbers up to 100. By the 1770's a table of number factorizations up to two million was constructed. In 1859 Riemann demonstrated that the key to the deeper understanding of the distribution of prime numbers lies in the study of a certain complex-valued function, called the zeta-function. In 1973 Montgomery used explicit formulas to study the pair correlation of the zeros of the zeta-function and their relationship to …

Effects Of Cigarette Butts On Coastal Waters: An Elemental Analysis Of Seawater From St. Simon’S Island, Katherine Adorati

Honors Theses

Cigarette litter can have detrimental effects on the environment, specifically when taking into account that over 4.5 trillion cigarette butts are littered every year. Within seawater, trace elements present in cigarettes may leach into the ocean, having damaging effects on the marine ecosystem. The goal of this research was to investigate if elemental contaminants leached from cigarette litter are significant in samples of seawater collected near St. Simon’s Island at both high and low tides, surrounding a beach party during the Florida/Georgia football game which occurred on November 1, 2014. Samples were collected in the months prior to and during …

Alkaloids In E-Cigarettes: Their Effects On Cell Growth And Gene Regulation, Maxwell H. Marlowe

Honors Theses

E-cigarettes have become increasingly popular in the past decade. They are marketed as smoking cessation aids. These products have not been well regulated or researched with respect to health concerns and safety issues. A number of toxic compounds have been discovered in refill solutions, and the long-term effects of e-cigarette use are still largely unknown. Nicotine is one of the primary alkaloids within e-cigarette refill solutions. Nevertheless, other tobacco alkaloids are present including; cotinine, myosmine and anabasine, even though these compounds are not disclosed on the packaging. This study uses known amounts of tobacco alkaloids, in an in vitro culture …

Potential And Timescales For Oxygen Depletion In Coastal Upwelling Systems: A Box-Model Analysis, Cheryl S. Harrison, B. Hales, S. Siedlecki, R. M. Samelson

School of Earth, Environmental, & Marine Sciences Faculty Publications

A simple box model is used to examine oxygen depletion in an idealized ocean-margin upwelling system. Near-bottom oxygen depletion is controlled by a competition between flushing with oxygenated offshore source waters and respiration of particulate organic matter produced near the surface and retained near the bottom. Upwelling-supplied nutrients are consumed in the surface box, and some surface particles sink to the bottom where they respire, consuming oxygen. Steady states characterize the potential for hypoxic near-bottom oxygen depletion; this potential is greatest for faster sinking rates, and largely independent of production timescales except in that faster production allows faster sinking. Timescales …

Direct Band Gap Gallium Antimonide Phosphide (Gasbxp1-X) For Solar Fuels., Harry Benjamin Russell

Electronic Theses and Dissertations

Photoelectrochemical water splitting has been identified as a promising route for achieving sustainable energy future. However, semiconductor materials with the appropriate optical, electrical and electrochemical properties have yet to be discovered. In search of an appropriate semiconductor to fill this gap, GaSbP, a semiconductor never tested for PEC performance is proposed here and investigated. Density functional theory (DFT+U) techniques were utilized to predict band gap and band edge energetics for GaSbP alloys with low amount of antimony. The overall objective of this dissertation is to understand the suitability of GaSb_xP_1-x alloys for photoelectrochemical water splitting application. Specifically, …

Computation Of Least Angle Regression Coefficient Profiles And Lasso Estimates., Sandamala Hettigoda

Electronic Theses and Dissertations

Variable selection plays a significant role in statistics. There are many variable selection methods. Forward stagewise regression takes a different approach among those. In this thesis Least Angle Regression (LAR) is discussed in detail. This approach has similar principles as forward stagewise regression but does not suffer from its computational difficulties. By using a small artificial data set and the well-known Longley data set, the LAR algorithm is illustrated in detail and the coefficient profiles are obtained. Furthermore a penalized approach to variable reduction called the LASSO is discussed, and it is shown how to compute its coefficient profiles efficiently …

Analyzing The Phenologic Dynamics Of Kudzu (Pueraria Montana) Infestations Using Remote Sensing And The Normalized Difference Vegetation Index., Faye Peters

Electronic Theses and Dissertations

Non-native invasive species are one of the major threats to worldwide ecosystems. Kudzu (Pueraria montana) is a fast-growing vine native to Asia that has invaded regions in the United States making management of this species an important issue. Estimated normalized difference vegetation index (NDVI) values for the years 2000 to 2015 were calculated using data collected by Landsat and MODIS platforms for three infestation sites in Kentucky. The STARFM image-fusing algorithm was used to combine Landsat- and MODIS-derived NDVI into time series with a 30 m spatial resolution and 16 day temporal resolution. The fused time series was …

Some Contributions To Nonparametric And Semiparametric Inference For Clustered And Multistate Data., Sandipan Dutta

Electronic Theses and Dissertations

This dissertation is composed of research projects that involve methods which can be broadly classified as either nonparametric or semiparametric. Chapter 1 provides an introduction of the problems addressed in these projects, a brief review of the related works that have done so far, and an outline of the methods developed in this dissertation. Chapter 2 describes in details the first project which aims at developing a rank-sum test for clustered data where an outcome from group in a cluster is associated with the number of observations belonging to that group in that cluster. Chapter 3 proposes the use of …

Spectral Numerical Calculation Of Non-Isothermal Flow Through A Rotating Curved Rectangular Duct With Moderate Curvature, Md. Zohurul Islam, Md. Saidul Islam, Rabindra Nath Mondal

Applications and Applied Mathematics: An International Journal (AAM)

The present paper investigates non-isothermal flow characteristics through a rotating curved rectangular duct, where co-existence of the rotational forces and fluid temperature gradients leads to the emergence of rotation-induced buoyancy effects. A spectral-based numerical scheme is employed as the principal tool for the simulation while Chebyshev polynomial and collocation method as the secondary tools. The outer wall of the duct is heated while the inner wall cooled, the top and bottom walls being thermally insulated. The emerging parameters controlling the flow characteristics are the rotation parameter, i.e., the Taylor number Tr ranging 0 to 2000, the Grashof number Gr = …

Effect Of Solid Volume Fraction On Forced Convective Flow Of Nanofluid Through Direct Absorption Solar Collector, Salma Parvin, Rehena Nasrin, M. A. Alim

Applications and Applied Mathematics: An International Journal (AAM)

The present work numerically investigates the heat transfer performance and entropy generation of forced convection through a direct absorption solar collector. The working fluid is Cu-water nanofluid. The simulations focus specifically on the effect of solid volume fraction of nanoparticle on the mean Nusselt number, total entropy generation, Bejan number and collector efficiency. Also Isotherms, heat function and entropy generation are presented for various solid volume fraction. The governing partial differential equations are solved using penalty finite element method with Galerkins weighted residual technique. The results show that the mean Nusselt number and mean entropy generation increases as the volume …

Viscous Dissipation And Heat Absorption Effect On Natural Convection Flow With Uniform Surface Temperature Along A Vertical Wavy Surface, Sujon Nath, Nazma Parveen

Applications and Applied Mathematics: An International Journal (AAM)

The effect of viscous dissipation and heat absorption on a steady two-dimensional natural convection laminar flow of viscous incompressible fluid with uniform surface temperature along a vertical wavy surface has been investigated. Using the appropriate variables; the basic equations are transformed to convenient form and then solved numerically employing very efficient method, namely Keller-Box method (KBM). Numerical results are presented by the shearing stress in terms of the local skin-friction coefficient; the rate of heat transfer in terms of local Nusselt number, streamline and isotherms, respectively for a wide range of the viscous dissipation parameter N and heat absorption parameter …

Prandtl Number Effect On Assisted Convective Heat Transfer Through A Solar Collector, Rehen Nasrin, Salma Parvin, M. A. Alim

Applications and Applied Mathematics: An International Journal (AAM)

Numerical study of the influence of Prandtl number on forced convective heat transfer through a riser pipe of a flat plate solar collector is done. The working fluid is Al2O3/water nanofluid. By Finite Element Method the governing partial differential equations are solved. The effect of the Prandtl number on the temperature and velocity field has been depicted. Comprehensive average Nusselt number, average bulk temperature, mean velocity, mid-height temperature inside the pipe, mean output temperature and collector efficiency are presented for the governing parameter mentioned above. Nu increases by 16% with the variation of Pr from 4.6 to 6.6 using nanofluid. …

Identification Of Biomarkers For The Overall Survival Of Ovarian Cancer Patients, Kristi Mai

Graduate Theses and Dissertations

Rapid advance in sequencing technology has led to genome-wide analysis of genetic and epigenetic features simultaneously, making it possible to understand the biological mechanisms underlying cancer initiation and progression. However, how to identify important prognostic features poses a great challenge for both statistical modeling and computing. In this thesis, a network-based approach is applied to the Cancer Genome Atlas (TCGA) ovarian cancer data to identify important genes related to the overall survival of ovarian cancer patients. In the first step, a stepwise correlation-based selector is used to reduce the dimensionality of TCGA data, by filtering out a large number of …

A Chemical Sensor For Cyanide, Rachel E. Lambert

Honors Theses

The cyanide ion and its gaseous form, hydrogen cyanide, are extremely toxic. Cyanide impairs cellular respiration by inhibiting cytochrome c oxidase, an enzyme in the electron transport chain, leading to cell death.

In a previous study, we synthesized an optical sensor that detects cyanide selectively. The aim of this project is to increase the sensitivity of this sensor. This can be achieved by utilizing the unique spectroscopic properties of lanthanide ions.

The lanthanide metal (europium or terbium) was added to a coumarin-glycine chemodosimeter in a DMSO solvent system. The sensor was titrated with several monodentate analytes including, nitrate, octylamine, 1-pentanethiol, …

Using Intrinsic Properties Of Polyaniline To Sense Expression Of The Microrna Let-7, Jared N. Gloria

Honors Theses

MicroRNAs are approximately 22-nucleotide long RNA molecules that function through decay and translational repression of messenger RNA. The microRNA let-7 is found to play a role in maintaining the fate of differentiated cells in humans. Thus, expression level of this microRNA is a reliable biomarker of tumor cell phenotype. However, there are significant limitations in the current profiling techniques of microRNA. The current methods like northern blotting, microarrays, RT-PCR, or using locked nucleic acid (LNA) for in-situ hybridization are either laborious, semi-quantitative, or expensive. In this research we try to address this issue by developing a fast, specific, and inexpensive …

Development Of Arginyl-Trna Synthetase From Pseudomonas Aeruginosa As A Platform To Screen For Inhibitors Of Protein Synthesis, Daniel Cantu

Theses and Dissertations

Pseudomonas aeruginosa is a Gram- negative bacteria that is the leading cause of mortality in immunocompromised patients. Arginyl-tRNA synthetase (ArgRS) is an enzyme that catalyzes the covalent attachment of arginine to the cognate tRNAArg during protein synthesis. Scintillation proximity assays (SPA) were adapted to the aminoacylation assay and used to screen, one natural compound library (800) and one synthetic compound library (890) to identify inhibitors of the activity of ArgRS. Five compounds were identified which inhibited greater than 50% of enzymatic activity, two of these compounds (BT04F10 and BT11F03) exhibited promising MICs against Gram+ bacteria and moderate activity against Gram- …

Opinion Formation About Childhood Immunization And Disease Spread On Networks, Shan Shan Zhao

Theses and Dissertations

People are physically and socially connected with each other. Those connections between people represent two, probably overlapping, networks: biological networks, through which physical contacts occur, or social network, through which information diffuse. In my thesis research, I am trying to answer that question in the context of pediatric disease spread on the biological network between households as well as within them and its relationship with information sharing on the social network of households (parents in that case) via "Information Cascades." I mainly focus on the Erdos-Renyi network model. In particular, I use two different but overlapping Erdos-Renyi networks for the …

Efficient Verifiable Computation Of Linear And Quadratic Functions Over Encrypted Data, Ngoc Hieu Tran, Hwee Hwa Pang, Robert H. Deng

Research Collection School Of Computing and Information Systems

In data outsourcing, a client stores a large amount of data on an untrusted server; subsequently, the client can request the server to compute a function on any subset of the data. This setting naturally leads to two security requirements: confidentiality of input data, and authenticity of computations. Existing approaches that satisfy both requirements simultaneously are built on fully homomorphic encryption, which involves expensive computation on the server and client and hence is impractical. In this paper, we propose two verifiable homomorphic encryption schemes that do not rely on fully homomorphic encryption. The first is a simple and efficient scheme …

Temporal Kernel Descriptors For Learning With Time-Sensitive Patterns, Doyen Sahoo, Abhishek Sharma, Hoi, Steven C. H., Peilin Zhao

Research Collection School Of Computing and Information Systems

Detecting temporal patterns is one of the most prevalent challenges while mining data. Often, timestamps or information about when certain instances or events occurred can provide us with critical information to recognize temporal patterns. Unfortunately, most existing techniques are not able to fully extract useful temporal information based on the time (especially at different resolutions of time). They miss out on 3 crucial factors: (i) they do not distinguish between timestamp features (which have cyclical or periodic properties) and ordinary features; (ii) they are not able to detect patterns exhibited at different resolutions of time (e.g. different patterns at the …