Physical Sciences and Mathematics Commons^™

Comparing Region Level Testing Methods For Differential Dna Methylation Analysis, Arnold Albert Harder

Masters Theses

”Finding possible connections and solutions to help fight progression of diseases is a major area of research. Genomics is a primary path of research in disease research. Through the DNA sequence, possible connections to diseases have been found. However, most methods for fixing issues within a DNA sequence are still out of reach. One potential path is to investigate epigenetic modifications, such as DNA methylation. DNA methylation occurs when a methyl group attached to cytosines on the DNA sequence. Statistical methods can be used to identify sites or regions of significant differences in methylation levels between groups ( e. g. …

A Review Of Random Matrix Theory With An Application To Biological Data, Jesse Aaron Marks

Masters Theses

"Random matrix theory (RMT) is an area of study that has applications in a wide variety of scientific disciplines. The foundation of RMT is based on the analysis of the eigenvalue behavior of matrices. The eigenvalues of a random matrix (a matrix with stochastic entries) will behave differently than the eigenvalues from a matrix with non-random properties. Studying this bifurcation of the eigenvalue behavior provides the means to which system-specific signals can be distinguished from randomness. In particular, RMT provides an algorithmic approach to objectively remove noise from matrices with embedded signals.

Major advances in data acquisition capabilities have changed …

Hydrogeochemical Controls On Reactive And Nonreactive Solute Transport In Heterogenous Porous Media, Mahta Gholizadeh Ansari

Masters Theses

"This work examines how physical and chemical heterogeneity can affect reactive and non-reactive transport in porous media. The effect of heterogeneity of the porous media is investigated both on dissolution rate of magnesite and attenuation time of nonreactive contaminants in non-reactive media. Various spatial distribution were created using statistical parameters in PETREL.A total of 6793 transport modeling simulations were run using CrunchFlow. Lasso regression was used to select most significant features and those features are then used in linear regression and deep learning models.

The magnesite dissolution simulations were performed under different permeability ratios (magnesite /sand permeability) and inlet pH. …

Synthesis And Characterization Of Cu(Ii)-Cu(I) Mixed Valence Complexes, Hansani T. Lekam Wasam Liyanage

Masters Theses

Our study was focused on synthesis and characterization of new family of metal complexes that mimic the active site of copper containing enzymes. Our approach focused on preparing a series of metalloligands which vary systematically in structure and use them in combination with additional metallic centers to synthesize our desired complexes.

We synthesized a main ligand, which is named as HL^Q 2Pz, which contain a quinoline body, one amide bond and two pyrazolyl rings. We synthesized a copper complex by deprotonating HL^Q 2Pz using KOH. The ligand coordinated to the copper(II) center through its quinoline nitrogen, two of …

Red Emissive Bodipy Dyes As Sensitizers For Near-Infrared Emission Of Lanthanide Complexes & Structural & Spectroscopic Studies Of Quinoline-Functionalized Bodipy Dyes, Adedayo Ayodeji Kukoyi

Masters Theses

Bioimaging has become a significant tool for the visualization of biological events and the detection of numerous biomarkers. However, detection sensitivity is compromised by background signal from the biofluid which interferes with signals from the probes that usually emit in the visible region Alternative probes such as those that emit in the near-infrared (NIR) region are necessary to overcome these shortcomings. Lanthanide ions have demonstrated efficiency with sharp characteristic emission in the visible and (NIR) region. Emission however is mostly achieved by indirect sensitization process in which energy from the triplet state of a sensitizer is transferred to the excited …

Functionalized Bodipy Dyes For Near-Infrared Emission Of Lanthanide Complexes, Rukshani Wickrama Arachchi

Masters Theses

For many decades, fluorophores have been used to investigate natural systems, but autofluorescence and photobleaching diminish the detection capacity. Recently, BODIPY based lanthanide complexes have been synthesized and their photophysical properties have been investigated. These complexes exhibit higher emission efficiencies at NIR region with longer NIR lifetimes upon exciting at longer wavelength.

In this study, two BODIPY based lanthanide complexes were synthesized and their photophysical properties were evaluated. BODIPY based ligands were synthesized with phenanthroline as the ligand binding group. These ligands exhibit strong absorption at 527 nm and 532 nm, fluorescence at 540 nm and 548 nm with 0.55 …

Behavior Of Different Sizes Of Strontium Titanate Substrates In Electrochemical Modifications, Shuxin Luo

Masters Theses

In our previous atomic force microscopy (AFM) studies of 5 mm x 5 mm single crystal SrTiO₃ (STO(100)) substrates, rutile TiO₂ crystals were found on the substrates surfaces after electrochemical modification. These crystals were found mainly in the area of contact between the substrate and the gold-coated alligator clip that was not supposed to be immersed into the electrolyte and that served as a connection between the STO working electrode and the potentiostat circuit. The size and density of the crystals were found to depend on electrochemical potential, its polarity, the length of modifying time, and the total …

Bodipy-Based Red Sensitizers For Near-Infrared Emission Of Lanthanide Complexes, Priyangika Prasadini Senevirathne

Masters Theses

During the past 20 years there has been a remarkable growth in the use of the fluorescence technique in biological studies. Fluorescence and time-resolved fluorescence spectroscopy are considered primary research tools in the field of biochemistry. Currently, fluorescence spectroscopy is a dominant methodology and used widely in biotechnology and medical diagnosis process. One impediment in using fluorescent probes is the fluorescence of biological substrates and fluorescence of diagnostic probes are significantly overlapped, and it decreases the detection sensitivity. Also, commercially available probes require UV or near-UV light excitation, causing severe degradation of biological substrates. Near-infrared emitting lanthanide complexes can overcome …

Molecular Recognition Profiles Of Molecular Cocrystals, Ian C. Tinsley

Masters Theses

The manner in which molecules recognize each other holds critical importance to nearly every area of science. This significance stems from the key underpinning of molecular assembly to our most basic understanding of chemical processes. Whether these interactions relate to small-molecule catalytic transformations or complex physiological processes, the structural features responsible for molecular association play into the well-known adage that form follows function where material property arises from the collective structural features of the molecular components. Because the form of chemical systems is derived from a complex blend of covalent and non-bonded contacts, codifying each contributor has become essential for …

The North American River Otter (Lontra Canadensis) On The Department Of Energy's Savannah River Site, Emily B. Mccallen

Masters Theses

The Department of Energy's (DOE) Savannah River Site (SRS) faces a legacy of radionuclide and metal contamination from industrial processes that occurred within the site. The risks posed to ecosystems on the site from contaminants are quantified using the ecological risk assessment process, which often uses the health of a particular species as an ecological endpoint. Northern river otters (Lontra canadensis) are appropriate receptors for studying the effects of long-term, low-level contamination because they are long-lived, higher trophic level organisms likely to accumulate high levels of pollutants. However, little information about river otters on the SRS is known; …

Assessment Of Rockfall Rollout Risk Along Varying Slope Geometries Using The Rocfall And Crsp Software, Mariam S. Al E'Bayat

Masters Theses

"Most routes in mountainous areas suffer from rock falling, rolling and bouncing risk. There are many computer programs concerned with simulating the rockfall problem, and whereas they have the same purpose, they however differ in the input data that's needed to simulate the problem, and they also differ in the way of processing and kind of output.

This study used Rocfall® and the Colorado Rockfall Simulation Program (CRSP®) to simulate sixty-three models of varying slope geometry, where only the slope geometry is changed with the same material properties for both the slope and the rocks.

Both programs were fast and …

The Viability Of Advantg Deterministic Method For Synthetic Radiography Generation, Andrew Albert Bingham

Masters Theses

"Time sensitive and high resolution image simulations are needed for synthetic radiography generation. The standard stochastic approach requires lengthy run times with poor statistics at higher resolutions. The investigation of the viability of a deterministic approach to synthetic radiography image generation was explored. The aim was to analyze a computational time decrease over the stochastic method. ADVANTG was compared to MCNP in multiple scenarios including a Benchtop CT prototype, to simulate high resolution radiography images. By using ADVANTG deterministic code to simulate radiography images the computational time was found to decrease over 10 times compared to the MCNP stochastic approach"--Abstract, …

Provenance And Depositional Environments Of Fluvial-Lacustrine Deposits In A Non-Marine Rift Basin, Lower-Triassic Jiucaiyuan And Shaofanggou Low-Order Cycles Bogda Shan, Nw China, Jaimeson Grigaitis Fredericks

Masters Theses

"The uppermost Carboniferous to Lower Triassic eolian-fluvial-lacustrine deposits of Turpan-Junggar Basin, NW China, record the non-marine sediment-filling processes in a continental rift basin in mid-latitude NE Pangea. This study focuses on the fluvial-lacustrine strata of the Lower Triassic Jiucaiyuan (JCY) and Shaofanggou (SFG) low-order cycles (LCs) in multiple half grabens at the southern and northern foothills of Bogda Shan. Outcrop, paleocurrent, and petrographic analyses indicate a southern provenance. Intermediate to felsic volcanic lithics and metamorphic lithics are interpreted as being derived from Tian Shan to the south while the sedimentary lithics originate from the local rift shoulders. The basaltic lithics …

A New Reinforcement Learning Algorithm With Fixed Exploration For Semi-Markov Decision Processes, Angelo Michael Encapera

Masters Theses

"Artificial intelligence or machine learning techniques are currently being widely applied for solving problems within the field of data analytics. This work presents and demonstrates the use of a new machine learning algorithm for solving semi-Markov decision processes (SMDPs). SMDPs are encountered in the domain of Reinforcement Learning to solve control problems in discrete-event systems. The new algorithm developed here is called iSMART, an acronym for imaging Semi-Markov Average Reward Technique. The algorithm uses a constant exploration rate, unlike its precursor R-SMART, which required exploration decay. The major difference between R-SMART and iSMART is that the latter uses, in addition …

Overview Of Co₂ Leakage Problems And Sealants For Co₂ Leakage Remediation, Shudai Peng

Masters Theses

"Excessive Carbon Dioxide (CO₂) emission has become a serious issue and caused lots of environmental problems. Carbon Capture and Storage (CCS) program has been developed to reduce the CO₂ content in the atmosphere. CO₂ storage has been targeted mainly on depleted oil or gas reservoirs and deep saline aquifers. However, leakage could occur through wellbores, cap rocks, formation faults, and fractures during and after CO₂ injection. To minimize the risk, different types of sealants have been investigated to prevent CO₂ leaks. The aim of this thesis is to provide a comprehensive review of the materials which could be used as …

Cyber-Physical Security Of A Chemical Plant, Prakash Rao Dunaka

Masters Theses

"The increasing number of cyber attacks on industries demands immediate attention for providing more secure mechanisms to safeguard industries and minimize risks. A supervisory control and data acquisition (SCADA) system employing the distributed networks of sensors and actuators that interact with the physical environment is vulnerable to attacks that target the interface between the cyber and physical subsystems. These cyber attacks are typically malicious actions that cause undesired results in the cyber physical world, for example, the Stuxnet attack that targeted Iran's nuclear centrifuges. An attack that hijacks the sensors in an attempt to provide false readings to the controller …

Personalizing Education With Algorithmic Course Selection, Tyler Morrow

Masters Theses

"The work presented in this thesis utilizes context-aware recommendation to facilitate personalized education and assist students in selecting courses (or in non-traditional curricula, topics or modules) that meet curricular requirements, leverage their skills and background, and are relevant to their interests. The original research contribution of this thesis is an algorithm that can generate a schedule of courses with consideration of a student's profile, minimization of cost, and complete adherence to institution requirements. The research problem at hand - a constrained optimization problem with potentially conflicting objectives - is solved by first identifying a minimal sets of courses a student …

Imaging In Karst Terrain Using The Electrical Resistivity And Multichannel Analyses Of Surface Wave Methods, Ragab W. Jaafar

Masters Theses

"Electrical resistivity tomography and multi-channel analyses of surface waves data were acquired at a study area in Phelps County in the south-central part of Missouri. The objectives of the investigation were fourfold: 1) to image the subsurface in the study area to a depth of 70 feet; 2) to compare the ERT images generated using both the dipole-dipole and Wenner-Schlumberger arrays; and 3) to assess how variations in the MASW array configuration affected MASW data quality; and 4) to compare the ERT-estimated depth to top-of-rock and the MASW-generated depth to top-of-rock.

The subsurface in the study area was imaged to …

Mining Asteroids For Volatile Resources: An Experimental Demonstration Of Extraction And Recovery, Egboche Christopher Unobe

Masters Theses

"Gaseous compounds trapped within carbonaceous asteroids may prove to be important targets for prospective space miners in the near-term. Volatile release is from hydrated, hydroxylated and carbonated phases present, making such bodies attractive as feedstock for the production of H₂O, CO₂ and simple organic compounds. A source of these species in orbit provides an opportunity to locally produce space-craft propellant and other life-support gases through the application of In-situ Resource Utilization (ISRU).

For this study, an experimental vacuum system was modified and used to test the technical validity of radiatively heating asteroid simulants to extract contained gaseous …

Study Of Surface Complexation And Mineral Dissolution During Water-Rock Interaction In High Salinity Waterflooding At Elevated Temperatures, Sameer Salasakar

Masters Theses

"High salinity waterflooding for carbonate reservoirs is efficient and cheap method used for improved oil recovery. Various mechanisms have been proposed including adsorption/desorption on rock surface, mineral dissolution and precipitation, multicomponent ion exchange, interfacial tension reduction, fine migration and double layer expansion. These all process alter the wettability which leads to improved oil recovery.

Objective of this study was to understand processes that occur during water-rock interaction when high salinity water is flooded into the reservoir. In this work, effect of temperature on water-rock interaction is studied along with effect of pH and specific surface areas of calcite at normal …

A Bounded Actor-Critic Algorithm For Reinforcement Learning, Ryan Jacob Lawhead

Masters Theses

"This thesis presents a new actor-critic algorithm from the domain of reinforcement learning to solve Markov and semi-Markov decision processes (or problems) in the field of airline revenue management (ARM). The ARM problem is one of control optimization in which a decision-maker must accept or reject a customer based on a requested fare. This thesis focuses on the so-called single-leg version of the ARM problem, which can be cast as a semi-Markov decision process (SMDP). Large-scale Markov decision processes (MDPs) and SMDPs suffer from the curses of dimensionality and modeling, making it difficult to create the transition probability matrices (TPMs) …

2-D And 3-D Mapping Of Soil And Rock Structure In Karst Terrain Of Southwestern Missouri Using The Non-Invasive Electrical Resistivity Tomography Method (Ert), Diya Ali Ahmad Alfuqara

Masters Theses

"Electrical resistivity tomography data were acquired in an extensively karstic area of southwestern Missouri. The interpretation of the electrical resistivity tomography data was constrained by multichannel analysis of surface wave data and limited boring control. The objective of the study was to determine if variations in the moisture content of the soil and shallow rock are related to ground surface topography. Analysis of the acquired electrical resistivity tomography data showed that resistivity values of soil and shallow rock beneath and in proximity to identified natural and man-made surface run-off pathways are typically low compared to the resistivity values of soil …

Deformation Processes At The Leading Edge Of The Sevier Fold And Thrust Belt, Southwest Utah, William Joseph Michael Chandonia

Masters Theses

"Deformation processes leading to formation and abandonment of 'triangle zones' along the leading edge of the Sevier fold and thrust belt are investigated near Kanarraville, Utah through construction of a detailed geologic map and cross-section along Spring Creek. Here the eastern limb of the Kanarra fold, a Sevier structure, is well exposed along the Hurricane Cliffs due to uplift and erosion of the footwall of the Hurricane Fault. The east-verging Kanarra fold changes from upright to overturned within Spring Creek. Within the fold limb, parasitic folds, minor thrust faults, and duplex structures result in local tectonic overthickening of units and …

Structural And U-Pb Detrital Zircon Geochronologic Constraints On The Origin Of The Condrey Mountain Schist, California - Oregon, Joseph Reid Coons

Masters Theses

"The Condrey Mountain Schist (CMS) of the Klamath Mountains (northern California and southern Oregon) represent low grade oceanic and terrigenous sediments thrust beneath higher grade ophiolitic rocks of the Rattlesnake Creek Terrane (RCT). This study presents new U-Pb detrital zircon dates from the CMS, and from the possibly correlative basin rocks of the Galice Formation and accretionary rocks of the South Fork Mountain Schist. The Galice Formation yields a maximum depositional age of ca. 152 Ma with prominent date distributions of ca. 150-200 Ma (39% of analyzed grains), 200-600 Ma (1%), 600 - 1000 Ma (2%), and 1000-3200 Ma (58%). …

The Pantograph Equation In Quantum Calculus, Thomas Griebel

Masters Theses

"In this thesis, the pantograph equation in quantum calculus is investigated. The pantograph equation is a famous delay differential equation that has been known since 1971. Till the present day, the continuous and the discrete cases of the pantograph equation are well studied. This thesis deals with different pantograph equations in quantum calculus. An explicit solution representation and the exponential behavior of solutions of a pantograph equation are proved. Furthermore, several pantograph equations regarding asymptotic stability are considered. In fact, conditions for the asymptotic stability of the zero solution are derived and subsequently illustrated by examples. Moreover, an explicit solution …

Cloth-Air Partitioning Of Oxybenzone, Jonathan T. Hill

Masters Theses

"Clothing has been proven to be a significant accumulator of chemicals from the air. Semi-volatile organic compounds (SVOCs) have a high affinity towards textiles, and measuring the equilibrium partition coefficient between cloth and air (K_cloth-air) for SVOCs is crucial in predicting human exposure to these compounds. This study aims to quantify K_cloth-air for oxybenzone to contribute to a larger human exposure experiment carried out at the Technical University of Denmark (DTU). K_cloth-air for oxybenzone was calculated using data collected from the exposure chamber at DTU and from performing extractions of oxybenzone in fabric samples from the …

Decodable Network Coding In Wireless Network, Junwei Su

Masters Theses

"Network coding is a network layer technique to improve transmission efficiency. Coding packets is especially beneficial in a wireless environment where the demand for radio spectrum is high. However, to fully realize the benefits of network coding two challenging issues that must be addressed are: (1) Guaranteeing separation of coded packets at the destination, and (2) Mitigating the extra coding/decoding delay. If the destination has all the needed packets to decode a coded packet, then separation failure can be averted. If the scheduling algorithm considers the arrival time of coding pairs, then the extra delay can be mitigated. In this …

Evaluation Of Swelling And Re-Swelling Of Preformed Particle Gels (Ppg) When Exposed To Co₂, Sujay Suresh

Masters Theses

"Long term water/gas flooding induces high permeability channels in reservoirs. Reservoir heterogeneity becomes the most prominent challenge faced in mature oil fields. Gel treatment has been a proven solution to counter the problem of reservoir heterogeneity, to provide in-depth treatment and improve the sweep efficiency for reservoirs. Preformed particle gels (PPGs) were developed as an alternative to in-situ gels as they preferentially penetrate and shutoff high permeability zones, leaving the low permeability zones undamaged. These gels have been predominantly used in water flooding projects, but have not been employed in carbon dioxide (CO₂) flooding projects. CO₂ Resistant …

Multi Stage Recovery From Large Scale Failure In Interdependent Networks, Maria Angelin John Bosco

Masters Theses

"Node and link failures that usually cause limited damage in a single network, may cascade into large scale disasters in the case of interdependent networks, due to the dependencies that exist between them. Recovery from such failures may require multiple stages or steps for complete restoration of connection or flow between them. When critical services are disrupted, the order in which the broken elements are repaired affects the earliest possible recovery time of vital services. In a flow network, one order of restoration may restore more flow at an earlier stage than another. The paper aims to model an efficient …

Crustal Thickness And Vp/Vs Ratio Of Yellowstone, Eastern Snake River Plain, Wyoming Province, And The Northern Basin And Range Province Through Receiver Function Analysis, Avikant Dayma

Masters Theses

"For decades, numerous studies have been conducted and contradictory results were achieved about the origin and evolution of the Yellowstone supervolcano and the Eastern Snake River Plain. Whether the 640 km long time-progressive chain of rhyolitic calderas was formed due to mantle-plume or a result of lithospheric extension allowing the emergence of melt on the surface is still a debate. Using receiver function analyses, this study determines the crustal thickness and the Vp/Vs ratio below the Yellowstone Plateau, Wyoming Province (WP), Idaho Batholith (IB), Eastern Snake River Plain (ESRP), and the northern Basin and Range Province (BRP). The thickness is …