Physical Sciences and Mathematics Commons^™

Photophysical And Photochemical Processes In Small Molecules And Materials For Solar Energy Conversion, Ethan Lambert

Honors Theses

The work covered in this thesis all falls under the theme of photophysical processes after light and matter interact. Those of primary interest are Raman scattering induced vibrations and excited state dynamics probed by transient absorption spectroscopy. Small molecules are studied with Raman spectroscopy and computational chemistry. These studies unearth the shifts in vibrational frequency as a function of charge transfer or receipt and how a quantitative assay of natural orbital populations and delocalization can offer both the nature and magnitude of this charge transfer. Further, a method is presented that builds upon previous work within the academic family tree; …

Photocatalyzed Hydrogen Evolution Using Nickel-Bound Metallothionein Protein, Windfield Swetman

Honors Theses

The continued burning of fossil fuels is not only a cause of increasing deterioration of the environment but also a financially unsustainable source of energy. Advances in energy production must be investigated to avoid the long-term effects of this current main source of energy. One of the avenues being explored is the use of metalloenzymes to catalyze hydrogen evolution via water splitting that occurs during the reductive half of artificial photosynthesis. Metalloenzyme catalysts with a single Ni(Cys)₄ active site have been previously studied, and this study explores the possibility of increasing hydrogen production by using metalloenzyme catalysts with multiple …

Structural Integrity And Stability Of Dna In Ionic Liquid And Near-Infrared Indolizine Squaraine Dye, Ember Yeji Suh

Honors Theses

Luminol, the most common presumptive test for blood at a crime scene, has multiple issues, such as false positive results with chemical agents, no luminescence due to “active oxygen” cleaning agents on bloodstains, and inability to penetrate textile materials. A combination of indolizine squaraine dye and ionic liquid (IL), or Dye Enhanced Textile Emission for Crime Tracking (DETECT), have shown potential to address these issues. The purpose of this study was to assess the binding mechanism of CG (1:1) and SO₃SQ dye to HSA and how the mechanism can explain the W214 fluorescence quenching effect and to determine …

Aging An Ancient Maya Population From Actuncan, Belize Using Dental X-Rays, Kaitlyn Nicole Cash

Honors Theses

My goal is to determine an accurate age at death estimation of an ancient Maya population from the archaeological site of Actuncan, Belize. This was done by measuring the lengths of the coronal pulp cavities in the individuals’ teeth. I used X-Ray images to measure the coronal pulp cavities of the teeth and estimated age using multiple regression formulae for premolars, molars, and incisors to make age estimations. The formulae came from two studies, Ikeda et al. (1985) and Drusini (2008), that form the basis of my research. Ikeda et al. (1985) was the first to use this aging method, …

A Study Of Data/Monte Carlo Agreement In Charmed Baryon Decays At Belle Ii, Kaitlyn Thurmond

Honors Theses

The Belle II experiment at the SuperKEKB electron-positron accelerator facility in Tsukuba, Japan has a primary goal of searching for new physics beyond the Standard Model of particle physics. Extremely precise measurements of particle decays will be compared with Standard Model predictions in order to expose the presence of new particles and interactions. These measurements are prepared using simulated samples to avoid potential biases when studying the data. The Belle II collaboration produces two types of simulated samples for this purpose. One is produced with consistent calibration payloads and another with payloads calibrated as a function of data taking. This …

Investigating Reactivity Of Artificial Copper Peptides With Small Molecules, Allyson Bryant

Honors Theses

The design of artificial enzymes has been a topic of significant interest in the field of biochemistry, as they can provide new opportunities for catalytic processes and drug development. De novo protein design has emerged as a promising approach to create such enzymes, and the study of metalloproteins, particularly copper-binding peptides, has become a focus of this research. This thesis investigates the reactivity of a mutated copper-binding peptide, I5A-3SCC, with oxygen and its implications in the development of artificial enzymes.

The parent peptide, 3SCC, was mutated by replacing Isoleucine residues with smaller Alanine side chains, which was hypothesized to enhance …

A Camera Trap Study Of Scavenger Species On The University Of Mississippi Campus, Lise Larsen

Honors Theses

This is a camera trap study to understand what kind of mammalian scavenger community we have on the University of Mississippi campus and where they are most prominent. Three motion-triggered cameras were used to survey ten buildings on campus over ten weeks. A low number of individuals were caught on camera during this study. There were limitations on this study such as a low number of cameras and a short span of time. More research needs to be done to understand the scavenger community on this campus.

Identifying Key Activity Indicators In Rats' Neuronal Data Using Lasso Regularized Logistic Regression, Avery Woods

Honors Theses

This thesis aims to identify timestamps of rats’ neuronal activity that best determine behavior using a machine learning model. Neuronal data is a complex and high-dimensional dataset, and identifying the most informative features is crucial for understanding the underlying neuronal processes. The Lasso regularization technique is employed to select the most relevant features of the data to the model’s prediction. The results of this study provide insights into the key activity indicators that are associated with specific behaviors or cognitive processes in rats, as well as the effect that stress can have on neuronal activity and behavior. Ultimately, it was …

An Analysis Of Detection Asymmetry Using Baryon Decays In Belle Ii, Matthew Mestayer

Honors Theses

The purpose of this study was to determine the detection asymmetry of the Belle II detector using decays of two common baryons, Λ⁰ → ��π^- and Σ⁺ → ��π⁰. A Monte Carlo simulation of both decays was used to determine the validity of signal isolation criteria. These criteria were then applied to the Belle II data, allowing for a comparison of the detection asymmetry in the data relative to the simulation. The results show a moderate detection asymmetry when using the Λ⁰ → ��π^- decay, particularly for forward-going baryons. For the Σ^{+ …}

Imperfect Immunity And The Stability Of A Modified Kermack-Mckendrick Model, Kaylee Sims

Honors Theses

The classic Kermack-McKendrick model of mathematical epidemiology suggests that a population is only in equilibrium when there is no disease present. In the modern era, we have several cyclic infectious diseases that show no signs of eradication, despite global health measures. In this thesis, we introduce a coefficient of waning immunity in order to produce a modified Kermack-McKendrick model and analyze whether the model yields system stability with a certain amount of infection present. Ultimately, the model is incongruent with real-world case data, with its most glaring failure being exponential dampening of the height of each disease case peak due …

Exploration Of Feature Selection Techniques In Machine Learning Models On Hptlc Images For Rule Extraction, Bozidar-Brannan Kovachev

Honors Theses

Research related to Biology often utilizes machine learning models that are ultimately uninterpretable by the researcher. It would be helpful if researchers could leverage the same computing power but instead gain specific insight into decision-making to gain a deeper understanding of their domain knowledge. This paper seeks to select features and derive rules from a machine learning classification problem in biochemistry. The specific point of interest is five species of Glycyrrhiza, or Licorice, and the ability to classify them using High-Performance Thin Layer Chromatography (HPTLC) images. These images were taken using HPTLC methods under varying conditions to provide eight …

An Application Of The Pagerank Algorithm To Ncaa Football Team Rankings, Morgan Majors

Honors Theses

We investigate the use of Google’s PageRank algorithm to rank sports teams. The PageRank algorithm is used in web searches to return a list of the websites that are of most interest to the user. The structure of the NCAA FBS football schedule is used to construct a network with a similar structure to the world wide web. Parallels are drawn between pages that are linked in the world wide web with the results of a contest between two sports teams. The teams under consideration here are the members of the 2021 Football Bowl Subdivision. We achieve a total ordering …

Suboxic And Anaerobic Respiration Across A Sandy-Shore-To-Estuarine Gradient, Jacey Ballard

Honors Theses

Sulfate is an inorganic ion that is one of the major ions of seawater. Sulfate is also an essential reactant in microbially mediated anaerobic respiration that produces sulfide, an energy source during chemosynthesis. Sulfide is widely found in sediment, and water rich in decaying organic material, as well as hydrothermal vents. While sulfate reduction occurs extensively in muds, such as those of marshes, it is not expected to occur in sand which is much better aerated. Recent research in our group documented extensive sub aerobic respiration in coastal sands which suggests that sulfate reduction may have also been happening. This …

Digital Dna: The Ethical Implications Of Big Data As The World’S New-Age Commodity, Clark H. Dotson

Honors Theses

In the emerging digital world that we find ourselves in, it becomes apparent that data collection has become a staple of daily life, whether we like it or not. This research discussion aims to bring light to just how much one’s own digital identity is valued in the technologically-infused world of today, with distinct research and local examples to bring awareness to the ethical implications of your online presence. The paper in question examines anecdotal and research evidence of the collection of data, both through true and unjust means, as well as ethical implications of what this information truly represents. …

Investigation Of A Possible Switch Of Benthic Photosynthetic Organisms And Phytoplanktonic Organisms In White Point Swash, South Carolina, Nathan Easterling

Honors Theses

This research study examined the possible switch from benthic photosynthetic organisms to phytoplankton in the water column at White Point Swash, Long Bay, South Carolina, and what is causing this switch to occur. During Dr. Hannides’ and his group’s studies at this and other swashes in the past, they noticed this phenomenon of the benthic photosynthetic organisms taking over during a certain time and then the phytoplankton in the water column taking over during a different time. In this study, I measured the relative benthic macroalgal area coverage and sedimentary chlorophyll a concentration as measures of the abundance of benthic …

The Dynamics Of Sedimentary Chlorophyll Α At A High-Energy Beach, Sarah (Gray) Abel

Honors Theses

Productive sandy beaches are one of the most crucial areas serving our ecosystem today. While often overlooked in scientific research, productive beaches have many essential functions that lead to the preservation and protection of many different species as well as ecological wellness and stability. A key factor that is linked to this productivity is the presence of chlorophyll in the sediments. Piston cores of the sediments at the low-tide mark at Waties Island, South Carolina, were collected across multiple years and subsequently analyzed for chlorophyll concentrations through fluorometry after acetone extraction and acidification. Each core profile was processed to calculate …

Striped Blenny (Chasmodes Bosquianus) Presence And Behavior Between Sunrise And Sunset At Oyster Landing, South Carolina, Madeline Schuetze

Honors Theses

Lunar and diel cycles of fishes can help to interpret their behaviors during their reproductive season. Temperate estuaries are used by many benthic fishes for shelter and reproduction. This study examined the behavior and presence of striped blennies (Chasmodes bosquianus) during diel and lunar cycles. PVC pipe shelters were placed to mimic oyster shell nests, a natural habitat for blennies, and cameras were placed to monitor these shelters in April, May, and June 2022, during the striped blenny reproductive period. Video footage was reviewed and analyzed for the presence and behavior of both male and female blennies. Male presence …

Separating The R Vs. S Enantiomers Of A Quinoline Aimed At Inhibiting The Allosteric Binding Pocket Of Hiv-1 Integrase, Madison Canfield

Honors Theses

HIV-1 is a retroviral disease that infects CD4+ T cells in the body. Once inside the body, HIV-1 uses human cell machinery to replicate and reproduce using several enzymes to reverse transcribe viral RNA to DNA and integrate the viral DNA into the human genome to reproduce. Several drugs, such as NRTIs, INSTIs, NNRTIs, and PIs, have been created to inhibit specific parts of the viral life cycle and are used in combination to fight HIV-1. However, these medications face challenges of viral mutation and resistance, which increases the importance of creating more potent and effective drugs. Recently, a new …

Dissolved Copper Distributions In The Western Mississippi Sound: Characterizing An Unrecognized Endmember, Megan Hansen

Honors Theses

This study examined the distribution of dissolved copper (Cu) in the western Mississippi Sound, as the element can be beneficial or harmful to organisms depending on its concentration and its chemical form. A mixing experiment eliminated flocculation as a control on Cu distributions during estuarine mixing in both dissolved and colloidal fractions. Field sampling of the western Mississippi Sound occurred during a low river discharge period, and distributions of Cu indicated conservative mixing between fresh ([Cu] ≈ 17 nM) and saline ([Cu] ≈ 2 nM) sources in mid-to-high salinities. Storm outfalls were sampled after rain events to evaluate the impact …

Separating The R Vs. S Enantiomers Of A Quinoline Aimed At Inhibiting The Allosteric Binding Pocket Of Hiv-1 Integrase, Madison Canfield

Honors Theses

HIV-1 is a retroviral disease that infects CD4+ T cells in the body. Once inside the body, HIV-1 uses human cell machinery to replicate and reproduce using several enzymes to reverse transcribe viral RNA to DNA and integrate the viral DNA into the human genome to reproduce. Several drugs, such as NRTIs, INSTIs, NNRTIs, and PIs, have been created to inhibit specific parts of the viral life cycle and are used in combination to fight HIV-1. However, these medications face challenges of viral mutation and resistance, which increases the importance of creating more potent and effective drugs. Recently, a new …

Closing The Loop Of Food Systems: Analyzing Compost Within Community Bounds, Ellen A. Getter

Honors Theses

The aim of this thesis is to construct a philosophical and ecological argument that places great value on localized food systems in terms of waste. This composition develops the claim that building composting infrastructure on a community scale will curb the global climate crisis and enhance the interconnectedness humans have within themselves, each other, and the natural world. The first prong of this thesis entails a theoretical framework we must function under in order to implement such radical food revolutions in our communities informed by Buddhist principles. This proceeds an international case study of the composting infrastructure of Fort Albany …

The Hilbert Sequence And Its Associated Jacobi Matrix, Caleb Beckler

Honors Theses

In this project, we investigate positive definite sequences and their associated Jacobi matrices in Hilbert space. We set out to determine the Jacobi matrix associated to the Hilbert sequence by methods described in Akhiezer’s book The Classical Moment Problem. Using methods in Teschl’s book Jacobi Operators and Completely Integrable Nonlinear Lattice, we determine the essential spectrum of the corresponding Jacobi matrix.

Modeling Surface Structures For The Capture Of Carbon Dioxide, Paige Freyre

Honors Theses

Our research utilized a modified graphene surface model to simulate capture of carbon dioxide and nitrogen gas based on van der Waals forces and hydrogen bonding. We completed an extensive review of the literature for model and experimental surfaces used to trap carbon dioxide and nitrogen gas into structures and pores with varying functional groups, pore sizes, and pore structures. We replicated the design of selected published models and compared their and our calculated binding energies. We used Scigress (Fujitsu) software with the Molecular Mechanics MM3 parameter set to perform calculations to analyze a proposed graphene surface pore lined with …

Exploring The Structure Of Partial Difference Sets With Denniston Parameters, Nicolas Ferree

Honors Theses

In this work, we investigate the structure of particular partial difference sets (PDS) of size 70 with Denniston parameters in an elementary abelian group and in a nonelementary abelian group. We will make extensive use of character theory in our investigation and ultimately seek to understand the nature of difference sets with these parameters. To begin, we will cover some basic definitions and examples of difference sets and partial difference sets. We will then move on to some basic theorems about partial difference sets before introducing a group ring formalism and using it to explore several important constructions of partial …

Petrographic Observations Of Stromatolites In The Late Cambrian To Early Ordovician Knox Group, Northwest Georgia And Their Relationship To Stromatolitic Fabrics Over Geologic Time, Evan Ritchey

Honors Theses

Silica deposits are common in Proterozoic carbonate platforms and are interpreted to form early in the diagenetic history of the carbonate strata. Black early diagenetic chert deposits are often associated with evidence of ancient microbial mats, or stromatolites. Proterozoic chert nodules can contain well-preserved microfossils, because silicification occurs rapidly; however, silica deposition has changed over time and it is unclear if similar deposits exist in the Cambrian period after silica-utilizing organisms evolved. The Copper Ridge Dolomite in the Knox Group, northwest Georgia, which was deposited in the late Cambrian to early Ordovician, contains black chert nodules that follow the structure …

A Simulation Of Nuclear Pasta Using The Lattice Boltzmann Computational Method, Alexander Westbrooks

Honors Theses

No abstract provided.

Constraining H0 Via Extragalactic Parallax, Nicholas Ferree

Honors Theses

We examine the prospects for measurement of the Hubble parameter 𝐻₀ via observation of the secular parallax of other galaxies due to our own motion relative to the cosmic microwave background rest frame. Peculiar velocities make distance measurements to individual galaxies highly uncertain, but a survey sampling many galaxies can still yield a precise 𝐻₀ measurement. We use both a Fisher information formalism and simulations to forecast errors in 𝐻₀ from such surveys, marginalizing over the unknown peculiar velocities. The optimum survey observes ∼ 102 galaxies within a redshift 𝐻₀max = 0.06. The required errors …

The 2015 Ncaa Cost-Of-Attendance Stipend And Its Effects On Institutional Financial Aid Packages, Sara Greene

Honors Theses

In 2015, the National Collegiate Athletic Association (NCAA) allowed “Cost of Attendance” (COA) stipends to be offered to athletic recruits for Division I schools. These stipends are intended to allow schools to grant aid to student-athletes beyond a full-ride scholarship to cover additional costs imposed on student-athletes. These stipends created an opportunity for the “Autonomy” Power 5 programs to utilize a competitive tactic to try to win over the top recruits. There is evidence that these COA stipends have caused an increase in the estimated cost of attendance reported by the university. This paper examines if the COA stipends have …

The Parental Labor Gap: The Impact Of Daycare Access On The Parental Labor Force During The Covid-19 Pandemic, Acacia Wyckoff

Honors Theses

In the two years since the COVID-19 pandemic began, the landscape for work has shifted dramatically. Many companies and employers switched to telework when the pandemic hit, and many still do not require workers to come into the office. Research suggests these COVID-induced changes have led to a closing of the gap in childcare duties between men and women in households. Comparing parents in positions with telework eligibility versus in-person positions, Heggeness and Suri (2022) found that while telework improved the labor participation rate of mothers slightly, there was still a major gap in labor force participation between mothers and …

Study Of Missing Mass Background In The Clas12 Detector, Jessie Hess, Gerard P. Gilfoyle, Lamya Baashen

Honors Theses

At Jefferson Lab we use the CLAS12 detector to measure the neutron magnetic form factor. An accurate measurement of the CLAS12 neutron detection efficiency (NDE) is required. We use the nuclear reaction ���� → ��′��+�� as a source of tagged neutrons and obtain the NDE from the ratio of expected neutrons to detected ones. We assume the final state consists of ��′��+�� only, use the ��′��+ information to predict the neutron's position(expected) and then search for that neutron(detected). We select neutrons with the missing mass (MM) technique. We use simulation to validate our methods. We simulated events with the Monte-Carlo …