Physical Sciences and Mathematics Commons^™

Optimizing Cybersecurity Operations Using Data-Driven Intelligence, Jalal Ghadermazi

USF Tampa Graduate Theses and Dissertations

Cybersecurity operations centers (CSOCs) play a crucial role in safeguarding organizations from cyber threats. CSOC operations are divided into two main areas: Intrusion detection systems (IDS) and security response team (SRT) operations. Machine learning (ML) and deep learning (DL) advancements have significantly improved IDSs. IDS can be either flow-based, suitable for offline analysis, or packet-based, which analyze traffic in real-time. However, packet-based IDS often treat packets independently, ignoring the sequential nature of network communication. Additionally, recent ML/DL approaches also struggle with capturing global and structural information and novel attack detection due to their reliance on labeled data. The SRT within …

Transforming Organizational Cyber Security With Artificial Intelligence And Data-Driven Optimization, Soumyadeep Hore

USF Tampa Graduate Theses and Dissertations

This dissertation presents a comprehensive framework for enhancing organizational cybersecurity through data-driven intelligence. The research integrates multiple methodologies to tackle challenges in network intrusion detection and vulnerability management within cybersecurity operations centers (CSOCs). First, the research investigates vulnerability prioritization and mitigation techniques currently employed by CSOCs. To further streamline the vulnerability prioritization and mitigation process a machine learning (ML)-based Vulnerability Priority Scoring System (VPSS) is introduced, significantly improving the prioritization and mitigation of context-sensitive vulnerabilities. The VPSS outperforms traditional methods, reducing the cumulative vulnerability exposure score by up to 30% by considering both organizational context and vulnerability severity. Next, the …

A Robust Data-Driven Framework For Artificial Intelligent Systems, Quoc H. Nguyen

USF Tampa Graduate Theses and Dissertations

Artificial Intelligence (AI) systems have demonstrated remarkable performance across various domains. However, their robustness remains a critical concern, particularly in terms of data and model reliability. This dissertation aims to address the challenges associated with building robust AI systems by focusing on two key aspects: data robustness and model robustness. Data robustness poses significant challenges, including data shift, concept shifting, limited and imbalanced datasets, and interoperability issues in IoT systems for data collection. Existing methods fall short in handling dynamic business objectives and evolving data landscapes effectively. To bridge these gaps, we propose an IoT framework that ensures interoperability, seamless …

Black Holes In Time: The Effect Of Grid Radiation On The Tumor Immune Microenvironment, Rebecca A. Bekker

USF Tampa Graduate Theses and Dissertations

Tumor-immune interactions shape a developing tumor and its tumor immune microenvironment (TIME) resulting in either well-infiltrated, immunologically inflamed ‘hot’ tumor beds, or ‘cold’ immune deserts with low levels of infiltration. The pre-treatment immune state of the TIME is associated with treatment outcome; immunologically hot tumors generally exhibit better responses to radio- and immunotherapy than cold tumors. However, radiotherapy is known to induce opposing immunological consequences, resulting in both immunostimulatory and inhibitory responses. In fact, it is thought that the radiation induced tumoricidal immune response is curtailed by subsequent applications of radiation. Thus, I hypothesize that spatially fractionated radiotherapy (SFRT), administered …

Anonymized Identity Recognition And Classification Using Privacy Preserving Facial Encoding, Manas Sanjay Pakalapati

USF Tampa Graduate Theses and Dissertations

The need for sharing large-scale datasets to train deep neural network models, particularly in healthcare, raises significant data security and privacy concerns. To address these issues, methods such as data encryption or encoding are utilized. These techniques can encrypt the data and make it unreadable to humans, while still retaining its usefulness for training models.

In this study, we investigate various image encoding techniques designed to protect privacy by making images unrecognizable while still retaining their usefulness for model training. Our investigation utilized publicly available facial databases and focused on evaluating the trade-offs inherent in image encoding techniques, with a …

Optimal Selection Of Good Polynomials And Constructions Of Locally Recoverable Codes Via Galois Theory, Austin Dukes

USF Tampa Graduate Theses and Dissertations

To keep up with the ever-growing demand for reliable and efficient availability of data,locally recoverable codes (LRCs) have been the focus of much study due to their applications in cloud and distributed storage systems. A fundamental construction of LRCs was given in [36] based on polynomials which relied on the existence of r-good polynomials. In the same paper some constructions of good polynomials were given, but these constructions did not cover every configuration of parameters. Naturally this led to research into constructing good polynomials for what was not addressed in [36], but new ponderings were also posed, such as the …

An Analysis Of (Hu)Manid Using The Usf Donated Skeletal Collection: Estimating Sex And Ancestry For Edentulous Individuals, Natalie S. Wise

USF Tampa Graduate Theses and Dissertations

The Human Mandible Identification program, (hu)MANid©, enables anthropologists to estimate the sex and ancestry of unidentified skeletal remains from metric and morphoscopic variables from the mandible. The program is suitable for a variety of anthropological contexts, including forensic casework and bioarchaeological or paleoanthropological analyses. The purpose of this research project is to test the accuracy and applicability of the (hu)MANid program on edentulous mandibles. While the authors of (hu)MANid warn against data collection for edentulous mandibles, there are many circumstances in applied forensic casework where the unidentified person is edentulous. Edentulous individuals experience alveolar resorption, which is the loss of …

Painting A New Perspective On Ordovician Echinoderm Diversity Patterns, Ohav Barak Harris

USF Tampa Graduate Theses and Dissertations

The Ordovician Period was a time of great biotic and environmental change, encompassing two important biotic events: the Great Ordovician Biodiversification Event (GOBE) and the Late Ordovician Mass Extinction (LOME). The GOBE occurred during the Middle Ordovician and was a period of rapid diversity increase for marine invertebrate groups, as lower-level taxonomic groups like families and genera came into the forefront. The Ordovician ends with the LOME, an extinction event that is thought to have occurred in two phases: an initial glaciation followed by a subsequent warming. Approximately 85% of marine species went extinct during the LOME, making it the …

Specification, Enforcement, And Measurement Of Integrity Policies, Kevin Dennis

USF Tampa Graduate Theses and Dissertations

The first step to improving an organization's security posture is to define the organization's security goals. At a technical level, these goals are expressed as security policies. Security policies are predicates over programs, that return true or false if the program adheres to the policy. Defining these policies correctly is thus essential to ensuring the overarching security goals are met, but it is often quite difficult to translate human-oriented goals into their technical policy counterparts. In addition, these policies must be specified so that they are enforceable while minimizing false positives and false negatives. Integrity policies, which specify how data …

Unveiling Ferroelectric And Multifunctional Insights In Hybrid Formate Perovskites, Abduljelili Popoola

USF Tampa Graduate Theses and Dissertations

Formate perovskites, denoted as AB(HCOO)3, represent a diverse group of hybrid organic-inorganic compounds, renowned for their numerous phase transitions and a wide array of properties. These properties encompass (anti)ferroelectricity, ferroelasticity, (anti)ferromagnetism, and multiferroism. Despite extensive research on these materials, a comprehensive examination of their properties across a substantial number of formate perovskites remains scarce. This scarcity stems from structural complexity of these materials, potential systematic errors arising from different measurement techniques or incomplete data. For instance, data for critical parameters like piezoelectricity, dielectricity, and elasticity tensors have been lacking.

In this study, we address these challenges by employing first-principles density …

Evaluation Of Reduced Graphene Oxide For Advanced Thermal Management In Microwave Electronics Packaging, Utkarsh Misra

USF Tampa Graduate Theses and Dissertations

The continuous push towards making electronic devices smaller and denser, largely driven by the demand for higher power capabilities, has led to a critical need for innovative and comprehensive methods for managing the heat these devices generate. Traditional cooling solutions for electronics often rely on methods such as copper-based layers or channels to distribute and dispel heat. However, these conventional methods and materials are becoming increasingly insufficient, especially for Radio Frequency (RF) and millimeter-wave electronics. These components are becoming ever more compact while requiring more power, thus presenting unique challenges for thermal management in their packaging.

In this thesis we …

Role Of Hypogenesis In The Evolution Of Karst In The Taurus Mountains Range, Turkey, Serdar C. Bayari, Naciye Nur Özyurt, Lütfi Nazik, Koray A. Törk, Noyan İ. Güner, Emrah Pekkan, Pınar Avcı

International Journal of Speleology

Field observations and laboratory data collected from the Taurus Mountains Range, Turkey during the last two decades provided evidence for the link between the evolution of hypogene karst and the geodynamic history. Major evidence includes; carbonate-hosted secondary ore deposits that are converted from primarily hypogene minerals by epigene, oxygen-rich groundwater circulating at local to intermediate depths. Another piece of evidence of hypogene karst in the Tauride is the Kırkgöz springs’ huge submerged cave/conduit system, which formed the Antalya Travertine Plateau, which is the world’s largest deposit precipitated by cool karst groundwater. The obruks in central Tauride are giant collapse dolines …

High-Performance Computing In Next-Generation Sequencing Read Alignment, Minh H. Pham

USF Tampa Graduate Theses and Dissertations

Advancements in Next-Generation Sequencing (NGS) have dramatically reduced the cost and increased the speed of DNA sequencing. However, this rapid influx of data necessitates efficient and robust analysis tools, particularly for the complex task of aligning short NGS reads to reference genomes such as the human genome. We explore groundbreaking computational strategies and hardware acceleration to optimize this critical alignment process. This dissertation is structured around three innovative studies. First, we introduce a novel approach to dynamic memory allocation tailored for massively parallel systems, particularly Graphical Processing Units (GPUs), to support NGS alignment and other applications. Unlike traditional memory allocators …

Quantification And Diversity Of A Ubiquitous Ssdna Phage Group (Gokushovirinae) In The Red Sea Through The Polony Technique, Natalie A. Sawaya

USF Tampa Graduate Theses and Dissertations

With average concentrations of 107 virus-like particles per milliliter of seawater, viruses comprise the second largest biomass in the ocean, where they are a driving force of microbial evolution and constitute important roles in Earth’s biogeochemical cycles. Bacteriophage (phage), viruses that infect bacteria, are of particular importance in the marine ecosystem as they impact the efficiency of the microbial loop, which recycles carbon in surface waters, counteracting vertical export through the biological pump. Although double-stranded DNA phage have been researched extensively, single-stranded DNA (ssDNA) phage remain understudied, mostly due to methodological limitations.

The incorporation of rolling circle amplification (RCA) into …

The Polyaneuploid Cancer Cell State And Therapeutic Resistance: Eco-Evolutionary Dynamics In Structured Populations, Anuraag Bukkuri

USF Tampa Graduate Theses and Dissertations

In this dissertation, I develop and apply eco-evolutionary modeling techniques to understand how the polyaneuploid cancer cell (PACC) state, entered when aneuploid cells exit the cell cycle after S phase and undergo a whole genome duplication, contributes to therapeutic resistance. Since resistance remains one of the primary causes of treatment failure in cancer patients, it is critical to understand how such demographic state transitions allow for acclimatization of cancer cells to therapeutic stressors and how they interact with evolutionary processes to promote irreversible resistance.

In Chapters Two and Three, I lay the foundation for this work. In Chapter Two, I …

Subtropical Estuarine Ecosystems Display Both Long-Term Stability And Change, Garrett L. Miller

USF Tampa Graduate Theses and Dissertations

Subtropical estuaries often support abundant and diverse faunal assemblages, but it is unclear how these productive ecosystems are responding to climate change. In the eastern Gulf of Mexico, estuarine faunal assemblages have been sampled for decades as part of a fisheries-independent long-term monitoring program. I assessed trends in submerged aquatic vegetation, water temperature, and the abundance, richness, and structure of faunal assemblages over more than two decades in four estuarine systems using this dataset. I used both univariate and multivariate analyses to quantify and describe the dynamics of these habitat and faunal variables. Further, I separated my analyses for summer …

Predicting Ph At In-Situ Temperature For Aquatic Environments, Sarah E. Bartoloni

USF Tampa Graduate Theses and Dissertations

pH is typically measured at a constant temperature and, as needed, converted to in-situ temperature using a system of thermodynamic equations. Using this equilibrium approach, adjustment of pH to in situ conditions requires two measured CO2 system parameters (pH, total alkalinity, dissolved inorganic carbon, or CO2 fugacity). Currently, when pH is the only measured CO2 system parameter, linear models are used to adjust the pH to in-situ temperature. Although many studies have attempted to optimize CO2 equilibrium constants (K1 and K2) for the CO2 system over a range of conditions, very little prior work has experimentally examined which CO2 system …

A Speleogenetic History Of Novoafonskaya Cave In The Western Caucasus, Olga Chervyatsova, Sergey Potapov, Jonathan Baker, Dmitry Gavryushkin, Victor Polyak, Matt Heizler, Sergey Tokarev, Sergey Sadykov, Roman Dbar, Yuri Dublyansky

International Journal of Speleology

Speleogenesis in hypogene karst settings may be closely tied to regional tectonic dynamics and concomitant hydrochemical evolution of karst waters. However, placing temporal constraints on these processes can require a wider array of field observations and techniques than for typical karst systems. Herein, we present a comprehensive study of Novoafonskaya Cave (Western Caucasus, Abkhazia). The updated speleogenetic history of the cave comprises four stages: (1) the most ancient, a low-T hydrothermal (ca. 40–50°C) priming stage; (2) the main stage enabled by mixing of upwelling thermomineral and locally recharged common karst waters; (3) the late sulfuric-acid speleogenesis (SAS) stage, which left …

Monitoring Air Fluxes In Caves Using Digital Flow Metres, Claudio Pastore, Amir Sedaghatkish, Eric Weber, Nicolas Schmid, Pierre-Yves Jeannin, Marc Luetscher

International Journal of Speleology

Precise measurements of airflow within caves are increasingly demanded to assess heat and mass transfers and their impacts on the karst environment, including subsurface ecosystems, hydrochemistry of karst water and secondary mineral precipitates. In this study, we introduce a new, low-cost and lightweight device adapted to monitoring air fluxes in caves which addresses the need for reliable measurements, low power consumption, durability and affordability. The device was calibrated in a wind tunnel, showing the high accuracy and precision of the device. Field-related uncertainties were further investigated in a ventilated cave to determine the effect of local airflow conditions on the …

Sargassum In The Florida Keys: Assessment Using High Resolution Remote Sensing, Sarah “Sully” Sullivan

USF Tampa Graduate Theses and Dissertations

Pelagic Sargassum in the Atlantic Ocean, one type of floating macroalgae, has increased in biomass and extent since 2011, bringing environmental, health, and economic issues to coastal communities. The introduction of large quantities of Sargassum to the Florida Keys, a tourism hub renowned for coral reef and marine diversity, poses a potentially devastating threat. Currently, Sargassum mats are widely monitored using medium resolution satellite imagery such as those collected by the Moderate Resolution Imaging Spectroradiometer (MODIS, 1km) and spectral band difference algorithms such as the Alternative Floating Algae Index (AFAI), but the resulting maps lack the detail and nearshore certainty …

Exploring The Dynamics Of September Fish Spawning On The West Florida Shelf Through The Dna Barcoding Of Fish Eggs, Keith G. Keel

USF Tampa Graduate Theses and Dissertations

Identifying spawning areas for economically and ecologically important fishes is critical for fisheries conservation and ecosystem-based management. Additionally, monitoring the spawning dynamics of fishes is increasingly important as temperatures and oceanic conditions change. I used genetic barcoding to identify fish eggs collected across the West Florida Shelf (WFS) during September of 2013, 2014, and 2019. Fish eggs were collected on National Oceanic and Atmospheric Administration (NOAA) Southeast Area Monitoring and Assessment Program (SEAMAP) ichthyoplankton cruises using a Continuous Underway Fish Egg Sampler (CUFES). Analysis of 4,400 fish eggs from the three years resulted in the identification of 83 unique species …

Abundance, Distribution, And Diversity Of The Paralarval Cephalopod Community In The Northern Gulf Of Mexico, Shannon Leah Riley

USF Tampa Graduate Theses and Dissertations

The abundance, distribution, and diversity of cephalopod paralarvae from the upper water column (0-130 meters) in the northern Gulf of Mexico (GOM) was studied using samples collected during six ichthyoplankton surveys between 2009 and 2012. A total of 2240 cephalopod paralarvae belonging to 21 families were examined. Octopodidae, Enoploteuthidae, and Ommastrephidae were the most abundant taxa collected in the time series. Five taxa had significantly different abundances between some sampling periods, while no significant differences in abundance occurred between any GOM regions (northwest GOM shelf, north-central GOM shelf, West Florida Shelf, GOM slope, and GOM basin). The majority of taxa …

Surmounting Challenges In Aggregating Results From Static Analysis Tools, Dr. Ann Marie Reinhold, Brittany Boles, A. Redempta Manzi Muneza, Thomas Mcelroy, Dr. Clemente Izurieta

Military Cyber Affairs

Aggregation poses a significant challenge for software practitioners because it requires a comprehensive and nuanced understanding of raw data from diverse sources. Suites of static-analysis tools (SATs) are commonly used to assess organizational security but simultaneously introduce significant challenges. Challenges include unique results, scales, configuration environments for each SAT execution, and incompatible formats between SAT outputs. Here, we document our experiences addressing these issues. We highlight the problem of relying on a single vendor's SAT version and offer a solution for aggregating findings across multiple SATs, aiming to enhance software security practices and deter threats early with robust defensive operations.

Generative Machine Learning For Cyber Security, James Halvorsen, Dr. Assefaw Gebremedhin

Military Cyber Affairs

Automated approaches to cyber security based on machine learning will be necessary to combat the next generation of cyber-attacks. Current machine learning tools, however, are difficult to develop and deploy due to issues such as data availability and high false positive rates. Generative models can help solve data-related issues by creating high quality synthetic data for training and testing. Furthermore, some generative architectures are multipurpose, and when used for tasks such as intrusion detection, can outperform existing classifier models. This paper demonstrates how the future of cyber security stands to benefit from continued research on generative models.

Klimchouk’S Impact On The Development Of Speleogenetic Models For Castile Evaporites: West Texas And Southeastern New Mexico, Usa, Kevin W. Stafford

International Journal of Speleology

Due to the pioneering work of Alexander Klimchouk (2007), hypogene karst is now recognized as being complex and extensive throughout Permian strata of the greater Delaware Basin in West Texas and southeastern New Mexico (USA). Klimchouk heavily influenced our current understanding of hypogene speleogenesis in the Permian Ochoan Castile Formation where we now recognize diverse hypogene manifestations that include vertically-extensive breccia pipes, laterally-extensive blanket breccias, morphologically-varied caves, diagenetically-altered sulfates, and unique venting structures. Underlying Bell Canyon strata provide the transmissive zone for delivery and removal of solutionally aggressive fluids to the conformably overlying Castile evaporites. Current speleogenetic models indicate that …

Spectral Properties Of Wetlands In Michigan Using Remote Sensing To Identify And Classify Wetlands In Roscommon County, Michigan, Kolin Williamson

USF Tampa Graduate Theses and Dissertations

Biological, geological, and physical. These are only a handful of the many environmental aspects that wetlands functions maintain and protect. Unfortunately, wetlands within the United States have been razed at an alarming rate. The State of Michigan has not gone through this unscathed either, loosing over 1000 acres of wetland a year. One of the most important tools to prevent this destruction are the maps and programs that show where these essential ecosystems are located. The current, federally-created maps and imaging software in use by environmental consultants and contractors may not be up to date which can pose challenges for …

The Effect Of Fixed Time Delays On The Synchronization Phase Transition, Shaizat Bakhytzhan

USF Tampa Graduate Theses and Dissertations

Nature is full of synchronization phenomena, which are essential to many scientific fields like biology, chemistry, physics, and neuroscience. The Kuramoto model is a well-known theoretical model that helps explain the fundamental ideas behind synchronization dynamics [6]. Nevertheless, in practical situations, systems frequently display intrinsic latency, which can greatly impact their behavior during synchronization. This insight inspired our work, which looks at the results of adding temporal delays to the Kuramoto model. In particular, we investigate how the system’s synchronization dynamics are affected by delays. We shed light on the mechanisms underpinning synchronization in the face of temporal delays and …

Development Of Novel Analytical Methods For The Investigation Of Mammalian Tissues And Cells, Grace A. Binder

USF Tampa Graduate Theses and Dissertations

This dissertation endeavors to advance the frontiers of analytical chemistry by addressing critical challenges across three distinct chapters. In the first chapter, the focus is on the evaluation of digestion methods for the analysis of trace metals in mammalian tissues and the Standard Reference Material NIST 1577c. The primary goal is to optimize methodologies, laying the groundwork for reliable trace metal analysis and furthering our understanding of their roles in biological systems.

Transitioning into the realm of immunomodulation, the second chapter elucidates immune response, disease and treatment through the optimization and discovery of STING modulators, utilizing the luciferase assay for …

Time-Scale Of Groundwater Recharge In Coastal Plain Soils, Qing Du

USF Tampa Graduate Theses and Dissertations

Understanding and modeling the timing and magnitude of groundwater recharge fromrainfall infiltration through vadose zone percolation is important for many reasons but especially because the flux is being acted on by root zone evapotranspiration (ET) and very little of rainfall infiltration ever becomes water table recharge. This study elaborates on the considerable time of the wetting front arrival and ultimate bulk recharge of rainfall infiltration in shallow water table fine-sandy soils typical of coastal plain environments such as Florida. Calibrated Hydrus-1D modeling of Florida (Myakka) soil was evaluated at varying depths of water table and hydraulic conductivities to bracket the …

Context-Aware Affective Behavior Modeling And Analytics, Md Taufeeq Uddin

USF Tampa Graduate Theses and Dissertations

Affective computing (AC) is a sub-domain of AI that has the potential to assist people by assessing mental states and making appropriate recommendations to patients, loved ones, caregivers, and domain experts. Humans usually produce an enormous amount of data (such as face videos) every day. One of the major challenges for affective computer vision is to efficiently deal with high volumes of data to facilitate automated model development. To cope with this challenge, we developed computer vision algorithms that measure the expressivity of the human face from video data. More precisely, the developed algorithms can map complex affect information from …