Physical Sciences and Mathematics Commons^™

Streams Guidelines: Standards For Technical Reporting In Environmental And Host-Associated Microbiome Studies, Julia M. Kelliher, Chloe Mirzayi, Sarah R. Bordenstein, Aaron Oliver, Christina A. Kellogg, Eneida L. Hatcher, Maureen Berg, Petr Baldrian, Mashael Aljumaah, Cassandra Maria Luz Miller, Christopher Mungall, Vlastimil Novak, Alexis Palucki, Ethan Smith, Nazifa Tabassum, Gregory Bonito, J. Rodney Brister, Patrick S. Chain, Mingfei Chen, Samuel Degregori, Xuefeng Peng, Et. Al.

Faculty Publications

The interdisciplinary nature of microbiome research, coupled with the generation of complex multi-omics data, makes knowledge sharing challenging. The Strengthening the Organization and Reporting of Microbiome Studies (STORMS) guidelines provide a checklist for the reporting of study information, experimental design and analytical methods within a scientific manuscript on human microbiome research. Here, in this Consensus Statement, we present the standards for technical reporting in environmental and host-associated microbiome studies (STREAMS) guidelines. The guidelines expand on STORMS and include 67 items to support the reporting and review of environmental (for example, terrestrial, aquatic, atmospheric and engineered), synthetic and non-human host-associated microbiome …

Field Validation Of Multiple Species Distribution Models Shows Variation In Performance For Predicting Aedes Albopictus Distributions At The Invasion Edge, Anna V. Shattuck, Brandon D. Hollingsworth Ph.D., Jared Skrotzki, Scott R. Campbell, Christopher L. Romano, Courtney C. Murdock

Faculty Publications

Background

Climate and land use changes have resulted in range expansion of many species. In this shifting disease landscape, it is important to leverage tools that can predict the distributions of invading vectors to target surveillance and control efforts and identify at-risk populations. Species distribution models (SDMs) are used to predict ranges of invasive species; however, invasive species often violate assumptions of equilibrium and niche conservatism. Moreover, these studies are rarely validated using independent data.

Methods 

We use long-term surveillance data for Aedes albopictus, a highly invasive mosquito capable of transmitting several arboviruses, at its range edge to evaluate a …

Constraints On Inner Core Composition From Seismicanisotropy: The Importance Of Light Elements And Nickel, Jada Bollmeyer, Daniel A. Frost, Prajna Paramita Das

Faculty Publications

The inner core is seismically anisotropic, with PKIKP waves traversing the inner core parallel to the rotation axis faster than those in the equatorial plane. This anisotropy increases with depth into the inner core and may result from alignment of iron crystals deformed during inner core growth. Using previously calculated elastic properties of iron, we seek to determine the most likely iron-light element alloy (FeC, FeO, FeS, or FeSi). For each FeX alloy, we interpolate elastic tensors across the pressure and temperature range of the inner core and model the anisotropy resulting from flow during core growth. Lastly, we compare …

Circulating Levels Of Insulin-Like Growth Factor I (Igf-I) And Risk Ofmultiple Myeloma: An Observational And Mendelian Randomisation Study, Yolanda Benavente, Sara Hermosa, Nikos Papadimitriou, Alyssa I. Clay-Gilmour Ph.D., Elizabeth E. Brown, Jonathan N. Hofmann, Nathaniel Rothman, Qing Lan, Sonja I. Berndt, Demetrius Albanes, Mark Purdue, Mitchell J. Machiela, Stephen J. Chanock, Parveen Bhatti, Wendy Cozen, Aaron Norman, Susan L. Slager, James R. Cerhan, Vincent Rajkumar, Shaji J. Kumar, Et. Al.

Faculty Publications

Evidence for an association between insulin-like growth factors (IGF) and multiple myeloma (MM) is inconsistent. We examined total IGF-I concentrations and risk of MM by combining baseline serological data among UK Biobank participants (n = 444 187; 732 incident MM) with a two-sample Mendelian randomisation (MR) analysis using identified genetic variants associated with circulating total IGF-I and IGF-binding protein 3 (IGFBP-3) in the InterLymph consortium (2434 MM and their 2567 controls). Finally, additional lymphoid neoplasm (LN) subtypes were included for comparison with the main hypothesis. Circulating IGF-I level was positively associated with MM risk Hazard ratio-HR-per one standard deviation-SD-increase …

Electrochemical Breath Sensors In Medical Diagnostics: Emerging Trends And Future Directions, Natalie E. Strom, Courtney J. Weber, Olja Simoska

Faculty Publications

With the rising prevalence of metabolic diseases, infections, and mental health disorders, there is a growing demand for noninvasive diagnostic tools that enable early detection and continuous health monitoring. In this context, exhaled breath biomarkers provide insight into physiological and pathological processes. Electrochemical breath sensors (EBSs) have emerged as a promising platform for rapid, real-time, and cost-effective disease tracking via the detection of volatile breath biomarkers, such as NH₃, NO, and CO₂. Recent advancements in electrode materials, biological recognition elements, and sensor architectures—spanning nanomaterials, enzymes, aptamers, and molecularly imprinted polymers—have enhanced the analytical performance of EBSs. …

Electrochemical Breath Sensors In Medical Diagnostics: Emerging Trends And Future Directions, Natalie E. Strom, Courtney J. Weber, Olja Simoska

Faculty Publications

With the rising prevalence of metabolic diseases, infections, and mental health disorders, there is a growing demand for noninvasive diagnostic tools that enable early detection and continuous health monitoring. In this context, exhaled breath biomarkers provide insight into physiological and pathological processes. Electrochemical breath sensors (EBSs) have emerged as a promising platform for rapid, real-time, and cost-effective disease tracking via the detection of volatile breath biomarkers, such as NH₃, NO, and CO₂. Recent advancements in electrode materials, biological recognition elements, and sensor architectures—spanning nanomaterials, enzymes, aptamers, and molecularly imprinted polymers—have enhanced the analytical performance of EBSs. …

Flow Structure And Mixing Near A Small River Plume Front: Winyah Bay, Sc, Usa, Christopher Papageorgiou, George Voulgaris, Alexander E. Yankovsky, Diane Bennett Fribance

Faculty Publications

This study presents Eulerian data from Winyah Bay, SC, USA collected during the passage of a tidal plume. The data captured the evolution and structure of the plume and include high-resolution velocity and temperature time series, supplemented by temperature – salinity profiles from a MicroCTD profiler. The observations identified a pre-existing plume extending to 4 m, with a water density of 1023.6 kg m⁻³, laying above denser ambient waters. Upon arrival, the newly discharged tidal plume introduced a fresher layer (1020.7 kg m⁻³) extending to 2.6 m, gradually thinning due to radial spreading. The plume's frontal …

Flow Structure And Mixing Near A Small River Plume Front: Winyah Bay, Sc, Usa, Christopher Papageorgiou, George Voulgaris, Alexander E. Yankovsky, Diane Bennett Fribance

Faculty Publications

This study presents Eulerian data from Winyah Bay, SC, USA collected during the passage of a tidal plume. The data captured the evolution and structure of the plume and include high-resolution velocity and temperature time series, supplemented by temperature – salinity profiles from a MicroCTD profiler. The observations identified a pre-existing plume extending to 4 m, with a water density of 1023.6 kg m⁻³, laying above denser ambient waters. Upon arrival, the newly discharged tidal plume introduced a fresher layer (1020.7 kg m⁻³) extending to 2.6 m, gradually thinning due to radial spreading. The plume's frontal …

Interactions And Community Structure Of Fungi And Prokaryotes In Salt And Brackish Marsh Ecosystems, Madeleine A. Thompso, Xuefeng Peng

Faculty Publications

Microbial communities play a fundamental role in biogeochemical cycling within salt and brackish marsh ecosystems, yet fungal-prokaryotic interactions in these environments remain poorly understood. This study employed metabarcoding of the 16S and 28S rRNA genes to investigate prokaryotic and fungal communities across four locations in sediments and surface waters of the North Inlet salt marsh and Winyah Bay brackish marsh (South Carolina, USA) over four time points from 2020 to 2021. Co-occurrence network analyses were used to identify potential microbial interactions and their ecological implications. Distinct fungal and prokaryotic communities were observed between the two marsh types. From the 16S …

A New Low-Rate Stable Hydrogel Cathode For Aqueous Zn-Ion Batteries, Roya Rajabi, Shichen Sun, Jamil A. Khan, Morgan Stefik, Kevin Huang

Faculty Publications

Aqueous Zn-ion batteries (ZIBs) are attractive candidates for large-scale energy storage owing to the abundance, low cost, and intrinsic safety of Zn metal. However, their practical application is hindered by poor cycle stability, especially at low current densities, due to cathode dissolution and limited electrochemically active sites (EAS). Herein, a hydrogel-based cathode comprising ammonium vanadate, carbon black, and a Zn-ion-conducting carboxymethyl chitosan–acrylamide hydrogel matrix doped with Zn(ClO4)2 is reported. This design establishes a continuous Zn-ion-conducting network, thereby maximizing EAS density throughout the electrode volume. The ZIB with the hydrogel cathode exhibits outstanding cycling stability, with 77% capacity retention after 2000 …

Joint Neutrino Oscillation Analysis From The T2k And Nova Experiments, S. Abubakar, M. A. Acero, B. Acharya, P. Adamson, N. Anfimov, A. Antoshkin, E. Arrieta-Diaz, L. Asquith, A. Aurisano, D. Azevedo, A. Back, N. Balashov, P. Baldi, A. Bambah, E. F. Barenboim, A. Bashyal, A. Basti, K. Bromberg, N. Buchanan, Roberto Petti

Faculty Publications

The landmark discovery that neutrinos have mass and can change type (or flavour) as they propagate—a process called neutrino oscillation^1,2,3,4,5,6—has opened up a rich array of theoretical and experimental questions being actively pursued today. Neutrino oscillation remains the most powerful experimental tool for addressing many of these questions, including whether neutrinos violate charge-parity (CP) symmetry, which has possible connections to the unexplained preponderance of matter over antimatter in the Universe^7,8,9,10,11. Oscillation measurements also probe the mass-squared differences between the different neutrino mass states (Δm²), whether there are two light states and a heavier …

Adverse Childhood Experiences, Positive Childhood Experiences, And Digital Media Use Among Children And Adolescents In The United States, Elizabeth L. Crouch, Emma Boswell, Monique J. Brown Ph.D., Kevin J. Bennett

Publications

No abstract provided.

Pathlength, Altitude And Angle Of Incidence Dependence Of Remote Water Raman Scattering, Whitney E. Schuler, Paige K. Williams, Zechariah B. Kitzhaber, Caitlyn M. English, Tammi L. Richardson, Nikos Vitzilaios, Michael L. Myrick

Faculty Publications

A small remote Raman sensor was used to measure the Raman scattering signal from clear, still water as a function of water depth (12 cm and 396 cm depth), sensor distance above the water surface (20–300 cm), and angle of incidence (0–80°) to the normal of the water surface. Under thick- and thin-sample conditions, the signal depends on either the inverse, or the inverse square, of sensor distance from the water surface, respectively. A model is derived that fits data for different sensor distances, water depths, and angles of incidence. Fits to the measured data are consistent with the known …

Detecting Polar Ring Galaxies Via Deep Learning, Fawad Kirmani, Anathavishnu S. Unnii, Varsha P. Kulkarni, Kyle Lackey, John R. Rose

Faculty Publications

Polar ring galaxies (PRGs) are peculiar galaxies that show a ring of stars, gas, and dust oriented roughly over the poles of the central ‘host’ galaxy (i.e. roughly orthogonal to the disc of the host galaxy). The formation models for these rings involve mergers or tidal interactions of the host galaxy with another galaxy. Although the identified PRGs look different from each other, they all have a ring that is not in the same plane as the disc of the host galaxy. Unlike in galaxies such as our Milky Way, where stars form in spiral arms, the rings exemplify an …

Adipose Tissue Estrogen Receptor-Alpha Overexpression Ameliorates High-Fat Diet–Induced Adipose Tissue Inflammation, Marion C. Hope, Christian A. Unger, M. Chase Kettering, Cassidy E. Socia, Ahmed K. Aladhami, Barton C. Rice, Darya S. Niamira, Ben P. Wiznitzer, Diego Altomare Ph.D., William E. Cotham, Reilly T. Enos

Faculty Publications

Context

We created an innovative mouse model that enables inducible overexpression of estrogen receptor-alpha (ERα), specifically in adipose tissue (Adipo-ERα↑). Objective

We aimed to investigate how elevated Adipo-ERα↑ influences the development of high-fat diet (HFD)-induced obesity in both male and female mice. Methods

Male and female Adipo-ERα↑ mice and littermate controls were fed a low-fat diet (LFD) or HFD for 13 weeks. Adipo-ERα↑ was induced at the initiation of dietary treatment. Body morphology and composition, hepatic lipid accumulation, glucose tolerance, fasting insulin concentrations, and adipose tissue mRNA profiling were assessed. Liquid chromatography–mass spectrometry was used to determine circulating and adipose …

Pentanary And Hexanary Alkali Lanthanide Germanates Grown From Lanthanide Rich Flux Growth Reactions, Gregory Morrison, K. Pilar Zamorano, Virginia G. Jones, Ethan N. Adams, Hans Conrad Zur Loye

Faculty Publications

Single crystals of five compounds of a new structure type, the K3Nd52Ge12O100F7 type, were grown from lanthanide rich reactions using a KF/KCl flux: K3Ln52Ge12O100F7 (Ln = Nd, Eu), K3Ln52Ge12O100+δF7-δ (Ln = Pr, Tb), and K3Ca0.872Nd51.128Ge12O99.128F7.872. The five compounds crystallize in the cubic space group I-43d with lattice parameter 22.0350(2) Å for K3Nd52Ge12O100F7. The structure consists of a 3D checkerboard of LnX8, LnX7, LnX6, and GeO4 polyhedra, where X = O/F, and can be conceptually derived from the fluorite structure. K3Eu52Ge12O100F7 exhibits the fluorescence typical of Eu³⁺.

Spatiotemporal Modeling Of Maternal Mortality In South Carolina 2018-2023, Leah Wood, Ray Bai, Emily Mann

Senior Theses

Maternal death serves as a public health indicator due to fact that it is considered preventable with the availability of modern biomedicine, however, it persists broadly throughout the United States. Current literature outlines national trends in maternal mortality with complicating, preexisting conditions, and structural upstream factors often cited as being the largest contributors to increased risk. This study utilizes publicly available, county-level data for maternal death in addition to demographic and descriptive data in order to estimate maternal mortality rates in each of South Carolina’s 46 counties from 2018 to 2023. In order to address sparsity in the outcome variable …

Gravitational Perturbations And Quantum Field Interactions In Modified Spacetime Backgrounds, Abhishek Rout

Theses and Dissertations

This dissertation presents a study of gravitational perturbations and quantum field dynamics in modified spacetime backgrounds. The research is motivated by the quest to understand how quantum fields behave in curved spacetimes, particularly when extensions to general relativity, such as Chern--Simons modifications, are introduced.

The first part examines quantum field interactions with oscillating solitonic backgrounds, inspired by breather-type solutions of the sine--Gordon equation. Fermion bound states are shown to undergo destabilization due to the oscillatory background, leading to particle production and flux propagation to infinity. These results highlight the challenges of maintaining localized fermionic states in time-dependent topological backgrounds.

The …

Coefficients Of The Characteristic Polynomial Of A Hypergraph And Their Combinatorial Properties, Utku Okur

Theses and Dissertations

We investigate the combinatorial properties of the characteristic polynomial $\phi_\mathcal{H}\ev{t}$ of a hypergraph $\mathcal{H}$, in particular, its coefficients. Due to a classical result of Jacobi, the generating function of closed walks at a vertex $u$ in a graph $G$ is determined by the rational function $\phi_{G-u}(t) / \phi_G(t)$. The connection between closed walks of $G$ and its characteristic polynomial has a known elegant proof via an application of Viennot's Heaps of Pieces framework, where cycles are taken as pieces and the concurrence relation is sharing a vertex. Here, we prove a bijection between heaps with a unique maximal piece containing …

Thesis: Comparing Functional And Effective Brain Connectivity Metrics For Eeg, Diksha Srishyla

Theses and Dissertations

Background:Brain connectivity measures have been used to study communication between brain regions using electroencephalography (EEG). Functional and effective connectivity estimate the synchronization and the flow of information between regions, respectively. However, findings from studies using different measures to investigate similar connections do not converge. To guide the selection of functional and effective connectivity measures in future studies, we systematically compared a set of measures in the context of resting state EEG. We examined four functional connectivity metrics (coherence (Coh), the imaginary part of coherence (imCoh), the corrected imaginary part of phase lagged value (ciPLV), the debiased weighted phase-locking index (dwPLI)) …

Improving Universities Through The Use Of Ai & Transformative Technology: A Case Study Analysis At The University Of South Carolina, Cameron A. Caulk

Senior Theses

This thesis aims to give university leaders a practical guide to implementing AI, using lessons learned from the University of South Carolina’s experience as a case study. The project started with a review of literature and industry practices for the Finance & Administration division, which led to key deliverables like AI usage guidelines, DoIT’s position paper on AI systems, and the ParkUSC parking app. One ongoing project, Project Shuttlecock, even sets the stage for future AI initiatives at the university.

AI holds immense promise, but universities often hesitate due to concerns about ethics, costs, and the learning curve for staff …

Improved Extraction And Detection Of Disinfection Byproducts, Impacts Of Wildland-Urban Interface Wildfires On Drinking Water, And Change In Disinfection Byproducts Over Time In Chlorinated Vs. Chloraminated Distribution Systems, Patrick Thomas Justen

Theses and Dissertations

Drinking water disinfection is critical to prevent the occurrence of waterborne pathogens in drinking water. However, disinfection causes the unintended formation of disinfection byproducts (DBPs) through the reaction of disinfectants (e.g., chlorine, chloramine) with natural organic matter (NOM), algal matter, or anthropogenic pollutants present in source waters. Exposure to DBPs is associated with increased bladder cancer, colorectal cancer, miscarriage, and birth defects. The U.S. EPA currently regulates eleven DBPs in drinking water—four trihalomethanes, five haloacetic acids, bromate, and chlorite. However, research shows that DBP related toxicity in drinking water is driven mainly by other, non-regulated DBPs, particularly iodinated DBPs and …

Synthesis And Characterization Of Lanthanide Extended Structures And Their Novel Transuranic Analogues, Hunter Bernard Tisdale

Theses and Dissertations

The United States owns a substantial amount of radioactive waste as a result of decades of research, weapons manufacturing, and nuclear energy production. As nuclear energy and research continue to add to our stockpiles of waste, the issue of remediating this waste becomes more pressing. Many of the radioactive constituents of this waste, such as the transuranic (Z > 92) elements, will give off radioactivity at harmful levels for millennia. Thus, a robust method of storing this waste is paramount to ensuring public safety. Currently, nuclear waste is being processed by vitrifying it in borosilicate glass. However, this method has shortcomings …

Investigating The Influence Of Instructional Strategies On The Development Of Procedural And Conceptual Knowledge In Advanced Algebra Ii Students, Maura Frances Yinger

Theses and Dissertations

This mixed-methods action research study investigated the influence of instructional strategies shown to improve students’ procedural and conceptual understanding in a rational expressions and equations unit in Advanced Algebra II. The instructional strategies used in the study include comparing, self-explaining, and exploring before instruction. The students (N=27) completed a pre-test and a post-test, both of which were followed by questions asking students to justify their responses on two questions. All students also responded to six digital self-explanation journal prompts. Randomly selected students were placed into three homogenous groups to participate in performance task observations. Analysis of the data …

Application Of Machine Learning For Vascular System Analysis, Alireza Bagheri Rajeoni

Theses and Dissertations

The analysis of vascular structures is critical for diagnosing, monitoring, and treating vascular diseases such as aneurysms, stenosis, and vascular calcification. Traditional methods often rely on manual interpretation of imaging data, which is time-consuming, subjective, and not scalable. This work explores the application of advanced machine learning techniques to automate and enhance vascular system analysis. Our contributions include achieving state-of-the-art accuracy in vascular segmentation, developing a machine learning pipeline to automatically quantify vascular calcification in peripheral arterial disease, and designing a multi-stage machine learning system for abdominal aortic aneurysm analysis that identifies aneurysm boundaries and estimates aneurysm volume in a …

New Approaches On Source Coding For Quantum Stochastic Sources And Implementation Of Quantum Fanout Gate, Rabins Wosti

Theses and Dissertations

The accurate computation of advanced quantum algorithms like Shor’s integer factorization, quantum phase estimation (QPE), and the quantum Fourier transform (QFT) requires quantum circuits of considerable size and depth. It is difficult to achieve reliable computation with deep quantum circuits due to the limited coherence times of the current noisy quantum devices. The quantum fanout gate is known to be a powerful primitive for reducing the depth of many quantum circuits (Høyer and Špalek 2003; Gottesman and Chuang 1999). Shallow or constant-depth quantum circuits are desirable for both near-term and fault-tolerant quantum computations as they reduce noise and allow faster …

Implicit Neural Representation For Image Reconstruction, Canyu Zhang

Theses and Dissertations

Image reconstruction seeks to restore corrupted images and recover visual content that has been lost or degraded. Such degradation may result from low resolution, occlusion, masking, or shadow interference. This problem has become an increasingly significant research topic, as visual information plays a central role in almost every aspect of modern life. Neural network based approaches have recently emerged as highly effective solutions for this task. In particular, convolutional neural networks and transformer based architectures have demonstrated remarkable success in producing visually convincing reconstructions. However, these models remain constrained in several important ways, one of the most critical being that …

Computational Analogies In The Era Of Large Language Models, Amarakoon Mudiyanselage Thilini Wijesiriwardene

Theses and Dissertations

Analogical reasoning is an important part of human cognition requiring the integration of abstract reasoning, pattern recognition, and background knowledge. Despite significant advances in language modeling, the capacity of current methods to accurately identify, model, and evaluate analogies remains fundamentally underexplored.

Analogies enable individuals to perceive deep similarities between superficially different situations. Effective analogy-making requires integrating knowledge about the external world with abstract reasoning and pattern recognition capabilities. While current language models (LMs), trained on massive textual corpora using autoregressive or masked objectives, achieve impressive performance across Natural Language Processing (NLP) tasks such as text generation, summarization, and classification, their …

Multi-Perspective Feature Learning For Facial Expression Recognition In The Wild, Xiangyu Hu

Theses and Dissertations

With the rapid progress of deep learning, Facial Expression Recognition (FER) has seen substantial improvements in performance, particularly “in the wild” meaning real world conditions. Despite these advances, most existing methods extract features from facial images as the sole emotional cues, which limits the model’s ability to capture the full complexity of human emotional expressions.

In reality, facial expressions are composed of diverse and multi-perspective information, including appearance-based cues and geometric structural deformations due to activations of facial muscles. Depending exclusively on one type of representation may fail to exploit the complementary nature of these cues, an issue that becomes …

Glucodensity Functional Profiles Outperform Traditional Continuous Glucose Monitoring Metrics, Marcos Matabuena, Rahul Ghosal Ph.D., Javier Enrique Aguilar, Ayya Keshet, Robert Wagner, Carmen Fernández Merino, Juan Sánchez Castro, Vadim Zipunnikov, Jukka-Pekka Onnela, Francisco Gude

Faculty Publications

Continuous glucose monitoring (CGM) data have revolutionized the management of type 1 diabetes, particularly when integrated with insulin pumps to mitigate clinical events such as hypoglycemia. Recently, there has been growing interest in utilizing CGM devices in clinical studies involving healthy and diabetic populations. However, efficiently exploiting the high temporal resolution of CGM profiles remains a significant challenge. Numerous indices—such as time–in–range metrics and glucose variability measures–have been proposed, but evidence suggests these metrics overlook critical aspects of dynamic glucose homeostasis. As an alternative method, this paper explores the clinical value of glucodensity metrics in capturing glucose dynamics—specifically the speed …