Physical Sciences and Mathematics Commons^™

Covariate Selection For Rna-Seq Differential Expression Analysis With Hidden Factor Adjustment, Farzana Noorzahan, Hyeongseon Jeon, Yet Nguyen

Mathematics & Statistics Faculty Publications

In RNA-seq data analysis, a primary objective is the identification of differentially expressed genes, which are genes that exhibit varying expression levels across different conditions of interest. It is widely known that hidden factors, such as batch effects, can substantially influence the differential expression analysis. Furthermore, apart from the primary factor of interest and unforeseen artifacts, an RNA-seq experiment typically contains multiple measured covariates, some of which may significantly affect gene expression levels, while others may not. Existing methods either address the covariate selection or the unknown artifacts separately. In this study, we investigate two integrated strategies, FSR_sva and SVAall_FSR, …

In Search Of The Rational Voter In The 2020 Presidential Election: Understanding The Impact Of Voter Costs And Benefits On Turnout, Norou Diawara, Tiffany Henley, Samuel L. Brown, Md Iqbal Hossain

Mathematics & Statistics Faculty Publications

The ability to vote is one of the most valuable rights and privileges afforded by the Constitution of the United States to its citizens. For many, voting is not just a civic duty; it is also a choice. Voting is crucial to our democracy, and any changes to it may affect the efficiency of the democratic process. The bigger question is whether voters behave rationally by engaging in a cost-benefit calculus in deciding whether or not to vote. Using data science, this paper will examine the probability of voting and investigate its impact via cost and benefit among other variables …

A Bridge Too Low, John Adam

Mathematics & Statistics Faculty Publications

The article "A bridge too low" in the Physics Teacher journal discusses a low bridge near the River Greta in Keswick, England, with an arch shaped like a semiellipse. It presents questions about the maximum height a person of a certain height can walk under the bridge without hitting their head, the cross-sectional area of the arch, its eccentricity, and perimeter. The article also mentions the approximation by Indian mathematician Srinivasa Ramanujan for the perimeter of an ellipse and invites readers to find the answers online.

Match Accuracy Of Burned Teeth: A Pilot Study Of Allied Dental Professionals, Brenda T. Bradshaw, Marsha A. Voelker, Samantha C. Vest, Sinjini Sikdar

Dental Hygiene Faculty Publications

Purpose: The purpose of this pilot study was to assess allied dental professionals' match accuracy of burned teeth; a skill required by disaster victim identification (DVI) team members.

Methods: This cross-sectional study used a convenience sample of registered dental hygienists (RDH) (n=15) and dental assistants (DA) (n=15) to assess their match accuracy of burned teeth with simulated antemortem (AM) and postmortem (PM) images. Fifteen human teeth were heated at 400°C for 15 minutes. Prior to and following heat alteration, each tooth was photographed and radiographed. Images were presented to participants in randomized order, and they were instructed to correctly match …

Synthetic Data Generation Of Health And Demographic Surveillance Systems Data: A Case Study In A Low- And Middle-Income Country, Dorcas G. Mwigereri, Nigel T. Kamotho, Akbar K. Waljee, Ryan T. Rego, Eileen M. Weinheimer-Haus, Farhana Alarakhiya, Anthony K. Ngugi, W. Nicholson Price, Ji Zhu, Stephen Peter Wong, Geoffrey H. Siwo

Articles

Objective: To evaluate effectiveness of open-source generative models in producing high-quality tabular synthetic data using a Health and Demographic Surveillance System (HDSS) dataset from rural Kenya, as a proof of concept in a low- and middle-income (LMIC) setting.

Materials and Methods: Three open-source models (CTGAN, TableGAN, and CopulaGAN) were used to generate synthetic data from the Kaloleni/ Rabai HDSS dataset. To assess the quality of the synthetic datasets generated by each model, we performed fidelity, utility, and privacy tests.

Results: CTGAN outperformed the other models, producing synthetic data that closely mirrored the statistical properties of the real dataset while preserving …

The Presence Of Outer Giant Planets And Their Role In Inner Planet Formation With And Without Their Influence, Mateo E. Guerra Toro

Graduate Theses/Dissertations

We performed dynamical simulations of the giant impact phase of planet formation to investigate the formation of inner terrestrial planets under the influence of 4 solar system-like outer giant planets. We developed a new code using the N-body simulation suite REBOUND and REBOUNDx (Rein et al. (2019) and Tamayo et al. (2019)) to simulate 2 stages of planetary formation: a residual gaseous protoplanetary disk phase and subsequent dynamical evolution after the disk photoevaporates. The initial conditions for the inner planetary embryos were taken by Morrison et al. (2020) based on a range of solid surface densities that produced Super-Earth terrestrial …

Movement And Activity Of Burbot, (Mizay; Lota Lota) In A Spring-Fed Minnesota Lake, Abigail M. Fountain

Biology Graduate Theses

Burbot (Mizay; Lota lota) are a relatively unmanaged freshwater fish, important in many local Indigenous cultures, but often overlooked or maltreated in research, conservation, and fishing practices. As such, relatively little research has been conducted on Burbot, despite ecological significance as an indicator species. A recent resurgence in popularity as a target species, however, has prompted new research to inform management policies. The objectives of this study were to summarize Burbot movement by identifying patterns in swimming activity and identify possible predictors of the movement observed. This study investigated the movements of 39 individuals implanted with acoustic transmitters in Bad …

Range Safety And Design For Launch, Space Dynamics Laboratory

Space Dynamics Laboratory Publications

Design to make licensing and launch easy

• Sometimes the most innovative or elegant solution isn’t the best one
• The less you have to prove, the better
• Don’t use novel materials
• Don’t use novel methods

Example: 3D printing is cool and reduces part count because you can design otherwise unmachinable parts

• Now you have to test, analyze, and prove to everyone that your part won’t fail
• If you machined the parts from AL 6061-T6 and bolted them together with stainless steel fasteners, nobody would have looked twice

Structural Design & Analysis, Poti G. Doukas

Space Dynamics Laboratory Publications

Agenda

• Structural Requirements
• Deployers
• Engineering Drawings
• Verification Testing

Smallsat Pcb Engineering, Space Dynamics Laboratory

Space Dynamics Laboratory Publications

• Concept
• Design
• Build
• Lessons Learned

Atmospheric Waves Experiment (Awe) Mission Overview, Pedro Sevilla

Space Dynamics Laboratory Publications

The AWE instrument images atmospheric gravity waves from the ISS, quantifying energy and momentum fluxes into the ionosphere-thermosphere system to better understand how tropospheric weather influences space weather

Perceptions Of Artificial Intelligence Use To Enhance Feedback For Preservice Teachers During Field Experiences, Betsy Schamber

Dissertations and Theses

University supervisors (USs) play a key role in providing feedback for preservice teachers (PSTs). Although artificial intelligence (AI)’s use in providing feedback in educational settings had been explored, its use for feedback for PSTs’ field experience remained unknown. The first case study herein explores PSTs’ perceptions of AI-assisted feedback for field experiences. Findings highlighted PSTs’ perceptions of AI as a catalyst for new idea generation. While AI provided a starting point, the ending output still needed to reflect PSTs’ personalities. Similarly, PSTs valued the human element of feedback, noting how USs’ lived experiences provided an added value. In K–12 classrooms, …

Embedding With Large Language Models For Classification Of Hipaa Safeguard Compliance Rules, Md Abdur Rahman, Md Abdul Barek, Abm Kamrul Islam Riad, Md Mostafizur Rahman, Bajlur Rashid, Md Raihan Mia, Hossain Shahriar, Guillermo Francia, Fan Wu, Alfredo Cuzzocrea, Sheikh Iqbal Ahamed

Computer Science Faculty Research and Publications

Although software developers of mHealth apps are responsible for protecting patient data and adhering to strict privacy and security requirements, many of them lack awareness of HIPAA regulations and struggle to distinguish between HIPAA rules categories. Therefore, providing guidance of HIPAA rules patterns classification is essential for developing secured applications for Google Play Store. In this work, we identified the limitations of traditional Word2Vec embeddings in processing code patterns. To address this, we adopt multilingual BERT (Bidirectional Encoder Representations from Transformers) which offers contextualized embeddings to the attributes of dataset to overcome the issues. Therefore, we applied this BERT to …

Fine-Tuned Large Language Models (Llms): Improved Prompt Injection Attacks Detection, Md Abdur Rahman, Hossain Shahriar, Guillermo Francia, Fan Wu, Alfredo Cuzzocrea, Sheikh Iqbal Ahamed

Computer Science Faculty Research and Publications

Large language models (LLMs) are becoming a popular tool as they have significantly advanced in their capability to tackle a wide range of language-based tasks. However, LLMs applications are highly vulnerable to prompt injection attacks, which poses a critical problem. These attacks target LLMs applications through using carefully designed input prompts to divert the model from adhering to original instruction, thereby it could execute unintended actions. These manipulations pose serious security threats which potentially results in data leaks, biased outputs, or harmful responses. This project explores the security vulnerabilities in relation to prompt injection attacks. To detect whether a prompt …

Voice-Activated Self-Monitoring Application (Vois): User Acceptance And Satisfaction In The Field, Hyunkyoung Oh, Li Yang, Tala Abu Zahra, Shiyu Tian, Min Sook Park, Jake Luo, Sheikh Iqbal Ahamed, Evelyn Chan, Jeffrey Whittle

Computer Science Faculty Research and Publications

This paper illustrates the processes and results of user acceptance and satisfaction tests for the voice-activated self-monitoring (VoiS) application conducted in the field. VoiS was designed and developed for individuals with diabetes (DM) and hypertension (HTN) to support their routine and convenient self-management using a smart speaker platform. VoiS is also accessible on users’ mobile devices to visualize user-generated data. A total of nine adults with DM and HTN participated and were asked to use the VoiS system at home for a week to identify its acceptability in real-world conditions. Participants completed phone interviews to report operational errors and a …

Relational Database Schema To Support Research Profiling Studies, Natural Language Processing, And Bibliometric Analysis, Darnelle Melvin

Library Faculty Research

In this paper, a relational database schema is introduced that supports rapid prototyping, data preprocessing, and warehousing tasks associated with research profiling studies, natural language processing, and bibliometric analysis. Python scripts are leveraged for the seamless retrieval and processing of data from Semantic Scholar. This schema is tailored to efficiently analyze entities such as authors, their scientific papers, referenced papers, and cited papers. Adhering to the relational model, this schema offers a standardized approach to data storage and detailed information retrieval for scientific papers. Enhancing knowledge discovery in scientific databases, this schema provides researchers with a powerful platform for robust …

From Code To Motion: Adventures With Wall-A Robot, Simon Sarah Mampouya-Balende

A with Honors Projects

This essay is about the author's experience working on a robot and programming, and what they learned from the project.

Artificial Intelligence In Society: Transformations And Ethical Paradigm, Yashoda Urmilla Itwaru

Selected Full-Text Master Theses 2021-

The recent advancement and adoption of AI (Artificial Intelligence) make it vital to study the effects it has on individuals and communities. Adopting AI into daily life changes interactions such as the decision-making process and task performance. AI algorithms can shape a user’s online experiences, influence their preferences, beliefs, and behavior. However, people raised concerns regarding privacy, autonomy, and manipulation. For these reasons, debates regarding the ethical aspects of AI arose.

AI provides society with more tools to complete tasks. AI can automate data intensive jobs and physical tasks. This brings a sense of job insecurity, which affects the mental …

Edge-Enhanced Yolo V8 Architecture For Accurate Kl Assessment In Knee Osteoarthritis Imaging, Meghana Arikilla

Selected Full-Text Master Theses 2021-

Knee Osteoarthritis (KOA) is a degenerative joint condition characterized by the progressive narrowing of joint space and structural deterioration. The structural degradation of the joint space is evaluated using the Kellgren–Lawrence (KL) grading system, and accurate classification across all grades, specifically in the early stages, remains a challenge owing to subtle radiographic differences. This study presents an automated KL-grade classification framework that integrates joint edge enhancement with deep learning to improve KOA grading using radiographic images.

Edge detection filters, namely Sobel, Scharr, and Canny, were applied to X-ray images to enhance the joint space boundaries and osteoarthritic features. These preprocessed …

Sptiotemporal Changes In Aboveground Biomass, Canopy Cover And Livestock Movements Across Mongolia Grasslands, Abhinav Chandel

Dissertations and Theses

This study presents an integrated geospatial framework for understanding grassland productivity dynamics and livestock movement behavior across the Mongolian steppe. Mongolia’s grasslands constitute one of the world’s largest pastoral ecosystems, yet they face increasing vulnerability due to climate variability, overgrazing, and land degradation. To quantify vegetation change and grazing responses, this research combines multi-decadal remote sensing with high-frequency GPS-based livestock movement tracking. Using Landsat imagery from 1990 to 2023, Aboveground Biomass (AGB) and Canopy Cover (CC) were estimated through Random Forest regression models integrating key spectral vegetation indices (e.g., NDVI, OSAVI, CTVI, TNDVI, IPVI) and climatic predictors such as summer …

Estimating The Amount Of Carbon Dioxide Gas Removed From The Atmosphere By The Bryant Park Tree Population, Edimarlyn Gonzalez

Open Educational Resources

No abstract provided.

Investigating The Impact Of Pfas Contamination On Mental Health, Jihyun Kim

Open Educational Resources

To explore the intersection of environmental injustice, racial disparities, and public health through an examination of PFAS contamination in drinking water and its impact on communities of color. This study will address environmental, social, and health implications of PFAS exposure, with a specific emphasis on promoting equity and advocating for policy changes to rectify systemic inequalities.

Addressing The Computer Science Teacher Shortage: A Case Study Of Wisconsin Public High Schools, Sujeeth Goud Ramagoni, Dennis Brylow

Computer Science Faculty Research and Publications

Technology is evolving rapidly worldwide, making computational knowledge integral across virtually every field. Consequently, broadening access and promoting equity in computer science (CS) education at the high school level is crucial. Certified CS teachers are critical in creating opportunities to provide equitable CS access to high school students. In recent years, Code.org reports have highlighted a significant increase in student access to CS content across the U.S., particularly in high schools. Therefore, this paper provides a high-level overview of Wisconsin (WI) public high school CS education, examining CS teacher certification and course enrollment data from 2017 through 2023 academic years. …

A Survey On Non-Invasive Computing: Neurological-Hematological Framework For Early Infection And Stroke Detection With Future Directions, Masud Rabbani, Nafi Us Sabbir Sabith, Sheikh Iqbal Ahamed

Computer Science Faculty Research and Publications

This paper introduces a novel, non-invasive tool for building a holistic neurological-hematological diagnostic framework that can be used for early detection of infection and stroke. We proposed and developed a multimodal sensing approach, where an ear canal–based acoustic system can be used to identify brain activities and a smartphone-based facial video analysis platform to estimate white blood cell (WBC) and hemoglobin (Hb) levels. Our ear-based EEG methodology achieved a remarkable 96% classification accuracy from the low-frequency level (>30hz), with regression models with mean R2 scores above 0.96 across all EEG bands. For hematological diagnostics, the system predicted WBC counts …

Nesting Population Trend Of The Leatherback Sea Turtle In Bocas Del Toro Province And Comarca Ngäbe-Buglé, Panama For The Period 2002–2022, Sonia Gutiérrez Parejo, Susan E. Piacenza, Raúl García, Cristina Ordóñez, Roldán A. Valverde

School of Earth, Environmental, & Marine Sciences Faculty Publications

Sea turtle biologists have made sustained efforts to understand the global status of leatherback sea turtle populations. However, despite progress in assessments, demographics, and ecology, key uncertainties persist in tracking leatherback population trends. Trend analyses have historically focused on nesting beaches, with nest counts providing a widely used index for population abundance. Here, we analysed 20 years of annual nest abundance at four main nesting beaches (Soropta, Bluff, Playa Larga and Chiriquí) in Bocas del Toro province and the Comarca Ngäbe-Buglé, Panama, which constitute the largest nesting leatherback sea turtle population in Central America. We conducted daily nest counts during …

Isolation And Molecular Identification Of Pathogens Causing Sea Turtle Egg Fusariosis In Key Nesting Beaches In Costa Rica, Keilor E. Cordero-Umaña, Ruth Hernando-Martínez, María Martínez-Ríos, Jaime Restrepo, Roldán A. Valverde, Laura Martín-Torrijos, Pilar Santidrián Tomillo, Javier Diéguez-Uribeondo

School of Earth, Environmental, & Marine Sciences Faculty Publications

The global rise of fungal pathogens presents an emerging threat to biodiversity, with significant risks to species such as endangered sea turtles. The fungal disease known as sea turtle egg fusariosis (STEF) is associated with high embryo mortality rates and represents a substantial conservation challenge. This disease is caused by two fungal species, namely Fusarium falciforme (Ff) and Fusarium keratoplasticum (Fk), and their identification is essential for guiding future efforts to address potential fungal infections, particularly on important nesting beaches such as those in Costa Rica. In this study, we conducted fungal isolations from sea turtle eggshells …

Knörr Lattices For Elementary Abelian Groups Over Unramified Extensions Of Z_P, Marie Swartz

Graduate Research Theses & Dissertations

In this dissertation, we examine the existence of positive height Knörr RD-lattices for D an elementary abelian p-group and R an unramified extension of the p-adics Zp. Knörr lattices form an important subclass of the absolutely indecomposable lattices and have close connections to modular representation theory’s “local to global” behavior. We generalize many prior results, shown only when p = 2, to odd p when |D| = p3. Further, when p = 3, we show that a positive height Knörr RD lattice must have a projective summand when restricted to any maximal subgroup of D. The proof of this requires …

Applications Of Bayesian Functional Data Analysis, Zhexuan Yang

Graduate Research Theses & Dissertations

Functional Data Analysis (FDA) is a statistical approach used to analyze data that vary across a domain, such as curves or functions. This dissertation investigates Bayesian Functional Data Analysis (BFDA) through three applications. First, we explore the use of BFDA in outcome-dependent follow-up (ODFL) studies. After conducting simulation studies, we apply our model to cardiotoxicity and kidney function data. Second, we extend BFDA to genetic data by modeling DNA methylation levels with a three-parameter skew-normal distribution and an alpha-skew generalized normal distribution. This study also introduces a novel Multistage Markov Chain Monte Carlo (MMCMC) method with the goal of identifying …

Covariance Matrix Forecasting Of Equity Portfolios, Michael Nebor

Graduate Research Theses & Dissertations

This dissertation consists of two papers. The first paper introduces DCC-SVR, a hybrid Dynamic Conditional Correlation (DCC) and Support Vector Regression (SVR) method of forecasting the covariance matrix. This paper shows that DCC-SVR is able to outperform the traditional methods of DCC and rolling historical on multiple data sets. Performance is shown for both standard GARCH and GJR-GARCH methods. This paper also analyzes performance when dimensions are increased to 49 dimensions and when an application using equal weighted portfolio allocation is used.

The second paper introduces a covariance matrix forecasting method based on copula-GARCH simulated returns. The accuracy of this …

Water Quality And Microplastic Contamination In An Urbanizing City Nakhon Pathom, Thailand, Boonyarak Chuanchit

Graduate Research Theses & Dissertations

Microplastics (MPs) are synthetic polymer particles less than 5 mm in size that originate from both primary manufacturing and the breakdown of larger plastics. Extensive studies have examined their occurrence in other environments, while little is known about their presence and behavior in groundwater, especially in urbanizing regions in Southeast Asia. This study investigates the occurrence and abundance of microplastics within groundwater systems of Nakhon Pathom, an urbanizing province in central Thailand.

Groundwater was collected representing shallow and deep aquifers between May 2023 and May 2025. The analyses included physical-chemical parameters, major ions, heavy metals, and microplastic abundance and composition. …