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Examining Extremes: A Comparison Between Machine Learning Based Southwestern Conus Seasonal Drought And High Fire Risk Event Synoptic Climatologies, Ethan M. Greenberg May 2026

Examining Extremes: A Comparison Between Machine Learning Based Southwestern Conus Seasonal Drought And High Fire Risk Event Synoptic Climatologies, Ethan M. Greenberg

School of Natural Resources: Dissertations, Theses, and Student Research

The Southwestern United States (SW CONUS), comprised of California, Arizona, Nevada, and Utah, is a vast region that tens of millions of people call home. Hosting ecosystems ranging from grasslands and shrublands to temperate forests and climate zones ranging from Mediterranean climates to arid deserts, the region is nearly unanimously prone to intense droughts and devastating wildfires. While fire weather conditions and drought are often studied separately or mentioned as background conditions for the other, there are relatively few studies that compare the typical meteorological conditions between the two. This study aims to more closely understand the meteorological relationship between …


Gaining Mussel: Evaluating Reintroduction Success Of Native Freshwater Mussels In Nebraska And Eastern Wyoming, Travis A. Moore May 2026

Gaining Mussel: Evaluating Reintroduction Success Of Native Freshwater Mussels In Nebraska And Eastern Wyoming, Travis A. Moore

School of Natural Resources: Dissertations, Theses, and Student Research

Freshwater mussels are one of the most imperiled groups of organisms in North America, with over two-thirds of species considered threatened, endangered, or of special concern. These long-lived bivalves are essential to stream ecosystems, acting as filter feeders that improve water quality and as indicators of aquatic health. In Nebraska and Wyoming, native mussel populations have declined sharply due to habitat modification, pollution, and reduced connectivity. Two species of particular concern are the Plain Pocketbook Lampsilis cardium, listed as Tier I at-risk in Nebraska, and the Fatmucket Lampsilis siliquoidea, a Tier II at-risk species. In response, state agencies …


Factors Affecting Pedestrian-Vehicle Conflicts: An Empirical Analysis, Christo D. Jamo May 2026

Factors Affecting Pedestrian-Vehicle Conflicts: An Empirical Analysis, Christo D. Jamo

Honors Scholar Theses

The number of pedestrian deaths increased by 78% between 2009 and 2023, while other motor vehicle crash deaths increased by 13% in the same period [1]. To identify potential pedestrian safety measures, this study analyzed the effects of location-based demographics, pedestrian phasing type, and other physical infrastructure and behavior variables on the probability of pedestrian-vehicle conflicts at signalized intersections, which is a surrogate measure of crash risk. Data were collected from 55 intersections in Connecticut, and the pedestrian-vehicle interactions were classified by severity based on the Swedish Traffic Conflict Technique: undisturbed passage, potential conflict, minor conflict, or serious conflict. Because …


Combinatorial Statistics Witnessing An Infinite Family Of Congruences For A Sum Of Partition Functions, Jena M. Gregory May 2026

Combinatorial Statistics Witnessing An Infinite Family Of Congruences For A Sum Of Partition Functions, Jena M. Gregory

Theses and Dissertations

In 2007, Kronholm established The Interval Theorem, infinite families of congruences in arithmetic progression, modulo any prime ��, for ��(��, ��), the function enumerating the partitions of �� into parts whose sizes come from the set {1, 2, … , ��}. In 2022, Eichhorn, Kronholm, and Larsen proved there are combinatorial statistics described in terms of the multiplicities of the part sizes that witness Kronholm’s Interval Theorem. Here, “witness" means given a congruence of the form ��(��, ��) ≡ 0 (mod ��), we can use these statistics to classify the set of partitions of �� into �� equally sized subsets …


General Chemistry Students' Perceptions Of How Various Course Resources Affect Their Learning And Exam Preparation, Jennifer Scoggin Cortez May 2026

General Chemistry Students' Perceptions Of How Various Course Resources Affect Their Learning And Exam Preparation, Jennifer Scoggin Cortez

Theses and Dissertations

The tertiary-level first-semester general chemistry course has a large range of material with different complexities that can be difficult for students to master within one semester. In the general chemistry I course under study here, students were provided with a variety of resources to help with their learning and understanding, with various components of the course, including the lecture, online textbook, Peer-Led-Team-Learning (PLTL) study sessions, and exams, having associated resources. This study aims to analyze students’ experiences with these various resources. Students were given semi-structured interviews where they talked about their experiences with the resources and provided insight into more …


Bounding The Average Kissing Number, Including New Bounds For Three-Dimensional Binary Sphere Packings, Mark William Bockhaus May 2026

Bounding The Average Kissing Number, Including New Bounds For Three-Dimensional Binary Sphere Packings, Mark William Bockhaus

Theses and Dissertations

The average kissing number is defined as the supremum over all sphere packings of the value: two times the number of tangencies divided by the number balls in the packing. In this paper, we present a survey of the literature about bounding the average kissing number, beginning with the first non-trivial results, through the most up-to-date bounds. We then turn our focus to binary sphere packings: those which contain spheres of two different radii. We improve upon known bounds for the average kissing number for binary sphere packings in three-dimensions and find exact bounds for many packings.


Assessing Water Quality And Nitrogen Dynamics In Bahia Grande, Texas Using Field And Remote Sensing Data, Sk Taufiqul Islam May 2026

Assessing Water Quality And Nitrogen Dynamics In Bahia Grande, Texas Using Field And Remote Sensing Data, Sk Taufiqul Islam

Theses and Dissertations

An 8,220-acre estuary in South Texas, Bahia Grande has recently been restored from a disconnected hypersaline basin to a tidal estuary. A spatially explicit water quality index (WQI) was developed and in situ physicochemical data coupled with remote sensing data from Sentinel-2 were used to determine ecological integrity. A WQI from 29.45-53.20 yielded a spatial distribution of water quality that displayed a non-linear spatial trend throughout the estuary. Water quality close to the Brownsville Ship Channel inlet yielded values of 'Moderate/Stressed' water quality (> 50). These areas represent local zones of disturbance where ammonium concentrations were more than 11 µmol/L. …


Vision-Based Vibration Monitoring Of Civil Structural Damage Detection Using A Low-Cost Autonomous Uav, Javier Antonio Becerril May 2026

Vision-Based Vibration Monitoring Of Civil Structural Damage Detection Using A Low-Cost Autonomous Uav, Javier Antonio Becerril

Theses and Dissertations

This thesis presents the development and experimental validation of a low-cost autonomous unmanned aerial vehicle (UAV) for non-contact vibration-based structural damage detection. We extract structural vibration signals directly from video recordings captured by the onboard camera during flight. The extracted vibration signals are analyzed in the frequency domain to identify natural frequency shifts associated with structural degradation and damage.

To evaluate the effectiveness of the proposed approach, a laboratory-scale steel frame structure is tested under both healthy and simulated damage conditions. In contrast to advanced commercial UAV inspection systems, the developed UAV achieves comparable inspection capability at a significantly lower …


Morphological Evolution And Sediment Budget Of A Flood-Tidal Delta On The Rio Grande Delta Plain: Bahia Grande, Texas, Usa, Aleen Pertuz Paz May 2026

Morphological Evolution And Sediment Budget Of A Flood-Tidal Delta On The Rio Grande Delta Plain: Bahia Grande, Texas, Usa, Aleen Pertuz Paz

Theses and Dissertations

The Isabel Delta is a recently formed flood-tidal delta within the restored Bahia Grande system on the Rio Grande Delta Plain, Texas, USA, where renewed tidal connectivity has created conditions for rapid sediment buildup and landform evolution. This study quantified morphological changes from 2008 to 2025 using satellite imagery. It assessed sediment retention by comparing the effective sediment discharge required to reproduce observed delta growth with field-based estimates of sediment supply derived from channel hydrodynamics, cross-sectional area, and suspended sediment concentration. The delta expanded steadily throughout the study period, with increases in bar, channel, and total surface area, and an …


Accurate Polyp Segmentation With Visual Mamba, Diego Adame May 2026

Accurate Polyp Segmentation With Visual Mamba, Diego Adame

Theses and Dissertations

Medical image segmentation is a fundamental task in computer-aided diagnosis because it enables precise delineation of anatomical structures and pathological regions from clinical images. While convolutional neural networks and Transformer-based models have achieved strong performance on many medical segmentation benchmarks, CNNs struggle to model long-range dependencies and Transformers often incur high computational complexity for high-resolution medical images. Recently, state space models have emerged as an efficient alternative for dense prediction tasks due to their ability to capture long-range dependencies with linear complexity. However, existing Mamba-based segmentation models still rely on pixel-wise raster scanning that disrupts spatial locality and use simple …


The Application Of Natural Language Processing Towards Auditing Of Unstructured Data: A Design Science Approach, Dennis K. Amoatey May 2026

The Application Of Natural Language Processing Towards Auditing Of Unstructured Data: A Design Science Approach, Dennis K. Amoatey

Electronic Theses and Dissertations

Financial auditors must manually review large volumes of unstructured text that may include contracts, internal policies, footnotes, and journal entry descriptions. This time-intensive process introduces risk of human error and inconsistency. Despite advances in automation, no systematic approach exists for applying Natural Language Processing (NLP) to this problem at scale. Using a design science approach, this study develops a framework that demonstrates how NLP techniques can be incorporated across key phases in the audit process, including planning, internal controls evaluation, evidence gathering, and reporting. Initial evaluation through expert feedback had a mix of responses. While some argued difficulty with data …


A Novel Approach To Creativity Assessment: Forced Pairwise Ranking With Large Language Models, Phillip R. Gregory Jr May 2026

A Novel Approach To Creativity Assessment: Forced Pairwise Ranking With Large Language Models, Phillip R. Gregory Jr

Master's Theses

Assessing creativity at scale remains a persistent challenge in cognitive science, as human raters are costly, slow, and often inconsistent in their judgments. This thesis introduced a novel framework for automated scientific creativity assessment using forced pairwise ranking, in which fine-tuned large language models compared response pairs and determined which was more creative. Five empirical studies were conducted using Llama-2-7B and Llama-2-13B models adapted via LoRA fine-tuning and benchmarked against human scored responses from the Scientific Creative Thinking Test. A regression baseline achieved Pearson �� = .74 on the test set, matching the human inter-rater ceiling reported in the literature. …


Between Chronicle And Legend: A Two-Scene Environment And Visual Effects Examination Of Physical Accuracy And Emotional Exaggeration On The Honey Creek Bridge Collapse, Alison R. Gaddy May 2026

Between Chronicle And Legend: A Two-Scene Environment And Visual Effects Examination Of Physical Accuracy And Emotional Exaggeration On The Honey Creek Bridge Collapse, Alison R. Gaddy

All Theses

This thesis explores how truth and dramatization intersect in digital storytelling by comparing realistic and stylized simulations of the Honey Creek bridge collapse within the context of the Kate Shelley animated short. At the core of storytelling lies a tension between factual accuracy and dramatic stylization. We investigate that tension by examining how narrative truth is conveyed, distorted, or enhanced through visual dramatization by focusing on the psychology of audience perception and the motivations behind creative embellishment. The practical contribution of this research is the development of two distinct digital scene setups depicting the same Honey Creek bridge collapse event. …


Multimodal Aerial Image-Based Ground Object Detection And Classification Using Yolo, Erik Nielsen May 2026

Multimodal Aerial Image-Based Ground Object Detection And Classification Using Yolo, Erik Nielsen

All Theses

Object detection in unmanned aerial vehicles (UAVs) present a unique challenge due to small object sizes, varying viewpoints, and changing environmental conditions. These challenges are exacerbated when operating during daytime and nighttime scenarios where illumination differences can heavily impact detection performance. This work is motivated by military object detection applications where the ability to reliably identify small objects such as landmines or unexploded ordnance from aerial imagery presents a critical safety need and a significant technical challenge. In this paper, we investigate object detection using both visible (RGB) and infrared (IR) imagery to improve robustness and reliability across diverse operating …


On The Paleontology Of Belize, Alson Ovando May 2026

On The Paleontology Of Belize, Alson Ovando

Electronic Theses and Dissertations

Paleontology can be considered an underrepresented and emerging area of science in Belize. A primary aim of this thesis is to provide a background of paleontology in Belize and present the first comprehensive study of Quaternary vertebrate fossils known from the country. Quaternary fossil sites across Belize include caves, rivers, and sinkholes. In addition to reviewing and assessing material from known sites, this thesis presents new information and discoveries that were made while investigating Belize’s Quaternary fossil record. This thesis also includes a geospatial model depicting ecoregions in Belize during the last glacial maximum. Overall, the results presented here demonstrate …


Stochastic Universal Differential Equations For Epidemiological Modeling: Uncertainty Quantification In Disease Transmission Dynamics, Alice Menaya Armah-Bonney May 2026

Stochastic Universal Differential Equations For Epidemiological Modeling: Uncertainty Quantification In Disease Transmission Dynamics, Alice Menaya Armah-Bonney

Electronic Theses and Dissertations

Epidemic forecasting requires not only predictions of expected case counts, but also quantification of uncertainty, although existing surrogate modeling frameworks for agent-based models remain fundamentally deterministic. In this thesis a Stochastic Universal Differential Equation framework is presented that extends the deterministic Universal Differential Equation approach by incorporating a learnable stochastic diffusion term, enabling calibrated probabilistic forecasts while preserving the mechanistic interpretability and computational efficiency of the deterministic baseline. In doing so, a two-phase training algorithm is introduced to ensure stable convergence and the framework is validated against the ensemble output from ExaEpi, an exascale agent-based model of a COVID-19 outbreak …


Extreme Precipitation Events And Population Exposure: Site Recommendations For The Future Tennessee Mesonet, Victoria G. Redlund May 2026

Extreme Precipitation Events And Population Exposure: Site Recommendations For The Future Tennessee Mesonet, Victoria G. Redlund

Electronic Theses and Dissertations

This study examines frequency of and population exposure to extreme rainfall events in Tennessee to guide the placement of future mesonet weather stations. Using 1991-2021 daily nClimGrid precipitation records, extreme events were defined as events of rainfall ≥50 mm. These events were collated on an annual scale and normalized alongside square-root-scaled population densities derived from Landscan to develop extreme rainfall vulnerability maps. Results highlight where extreme rainfall is most frequent relative to population densities in each county. The findings were compared with models of mesonet suitability and feasibility to determine how meteorological needs correlate with siting needs such as land …


Ontogeny And The Effects Of Perinatal Stress In The First Immature Skeleton Of Teleoceras Aepysoma (Perissodactyla, Rhinocerotidae), Joe Gajewski May 2026

Ontogeny And The Effects Of Perinatal Stress In The First Immature Skeleton Of Teleoceras Aepysoma (Perissodactyla, Rhinocerotidae), Joe Gajewski

Electronic Theses and Dissertations

Recovery of an immature fossil rhinoceros (Teleoceras aepysoma) skeleton (ETMNH 32999) from the Gray Fossil Site in Tennessee offers the first insights into the ontogeny of the species. ETMNH 32999 is interpreted to be a subadult male in an age class equivalent to ~17-20% of potential lifespan. Comparative analyses support the hypothesis that subadults of related taxa are typically ~91% of average adult size in most dimensions. However, certain cranial dimensions are substantially lower than expected in ETMNH 32999, averaging only ~74% of the average conspecific adult. Such departure from typical growth rates is suggested to be attributable …


Utilizing Physics Informed Neural Networks For Disrupted Signal Dynamics, Nicholas J. Joyner May 2026

Utilizing Physics Informed Neural Networks For Disrupted Signal Dynamics, Nicholas J. Joyner

Electronic Theses and Dissertations

Physics-informed neural networks (PINNs) have been used in many applications including engineering and physical sciences. PINNs allow the incorporation of a priori understanding of a process’ structure into the modeling. We attempt to leverage the PINN structure toward the evaluation of disruptions to classical dynamical models by combining elements of ordinary differential equations into our loss function with sigmoidal gating to balance the penalties for deviations from the data with those for structural deviations. This enables the identification of the signal structure and the limits of disruption influence. As a use case, we consider stock value from 2019-2021, which expresses …


Sevoauth: Secure Voiceprint Authentication With Hash-Based Feature Transformation, Rui Zhang, Zheng Yan, Robert H. Deng May 2026

Sevoauth: Secure Voiceprint Authentication With Hash-Based Feature Transformation, Rui Zhang, Zheng Yan, Robert H. Deng

Research Collection School Of Computing and Information Systems

While voiceprint authentication offers convenient user authentication and access control through voice feature recognition, a critical research gap remains: existing voiceprint authentication systems fail to simultaneously achieve sound security against replay, spoofing, and adversarial attacks, preserve voice privacy leakage, and satisfy usability demand. Previous efforts have struggled to balance these issues comprehensively. To bridge this gap, we present SeVoAuth, a cloud-based Voiceprint Authentication as a Service (VAaaS) system designed to provide privacy preservation, robust security, and enhanced usability. SeVoAuth stores a synthesized voiceprint of a user in the cloud during user registration, thereby safeguarding the privacy of the real voiceprint …


Synthesis And Evaluation Of Long-Term History-Aware Medical Dialogue, Hebin Hu, Renke Dai, Ah-Hwee Tan, Yilin Kang May 2026

Synthesis And Evaluation Of Long-Term History-Aware Medical Dialogue, Hebin Hu, Renke Dai, Ah-Hwee Tan, Yilin Kang

Research Collection School Of Computing and Information Systems

An effective healthcare agent must be able to recall and reason over a patient’s longitudinal medical history. However, the absence of datasets with realistic long-term dialogue timelines limits systematic evaluation. Real clinical text is constrained by privacy and ethics, while existing benchmarks focus on isolated interactions, failing to capture cross-session reasoning. We introduce a framework for synthesizing high-quality, long-term medical dialogues with LLMs. Our approach entails a knowledge-guided decomposition into three stages: constructing synthetic patient profiles with diverse disease and complication trajectories, generating multiturn dialogues per encounter, and integrating them into a coherent longitudinal history dataset, MediLongChat. We establish three …


Generation Of Elaborated, Targeted And Effective Feedback For Novice Programmers Using Llm, Hua Leong Fwa May 2026

Generation Of Elaborated, Targeted And Effective Feedback For Novice Programmers Using Llm, Hua Leong Fwa

Research Collection School Of Computing and Information Systems

Programming errors and misconceptions are pervasive in novice programmers which causes difficulty in the learning of computer programming. Large Language Models (LLMs), with their ability to comprehend and generate programming codes have shown promising results in the automatic identification of errors. This can potentially benefit student programmers by providing them with timely formative feedback at efficiencies and scale that were not attainable previously. In this study, we leveraged an LLM - OpenAI o4-mini for the generation of elaborated, targeted feedback for novice programmers across PHP and JavaScript exercises. We contend that the feedback needs to be effective and targeted other …


Pattern Dynamics And Stochasticity Of Brain Rhythms And Spike Trains In A Tauopathy Mouse Model Of Alzheimer’S Disease, Clarissa M. Hoffman May 2026

Pattern Dynamics And Stochasticity Of Brain Rhythms And Spike Trains In A Tauopathy Mouse Model Of Alzheimer’S Disease, Clarissa M. Hoffman

Dissertations and Theses (Open Access)

Systems neuroscience posits that every aspect of perceived physical reality, every aspect of animal and human behavior, and every cognitive phenomenon emerges from patterns of neuronal activity. While most researchers embrace this idea, there are major difficulties in describing and analyzing these complex neuronal dynamics—spike flows produced by cells ensembles, synchronized extracellular field oscillations, and other patterns—which limits our understanding of how the activity of individual neurons and the whole-animal cognition and behavior might be connected. In particular, we lack the approaches and even the semantics for connecting the individual cell outputs and the integrated results of their activity. Current …


Membrane Organization Of Rheb And Rhoa: Roles In Function And Allosteric Druggability, Chase M. Hutchins May 2026

Membrane Organization Of Rheb And Rhoa: Roles In Function And Allosteric Druggability, Chase M. Hutchins

Dissertations and Theses (Open Access)

Small GTPases of the Ras superfamily are membrane-bound molecular switches that regulate nearly all major cellular processes, and their dysregulation drives cancers, neurological disorders, and metabolic diseases. While anchored to cellular membranes, the catalytic domains of small GTPases undergo orientation dynamics, adopting distinct configurations that can occlude or expose effector-binding surfaces and modulate signaling output. These dynamics have been characterized in the Ras oncoproteins, but whether they extend across the superfamily and influence allosteric druggability has remained unknown.

In this dissertation, I address these questions through Rheb and RhoA, two small GTPases with complementary differences in subfamily lineage, membrane localization, …


Securing Cloud-Native Systems: From Vulnerability Analysis To External And Insider Threat Detection, Jiongchi Yu May 2026

Securing Cloud-Native Systems: From Vulnerability Analysis To External And Insider Threat Detection, Jiongchi Yu

Dissertations and Theses Collection (Open Access)

Cloud-native systems have become the backbone of modern software infrastructure. However, their dynamic resource orchestration and complex configurability introduce a large attack surface and intricate security challenges. Adversaries can externally exploit vulnerabilities in cloud components or perform insider movement within cloud environments to launch attacks. As these systems increasingly support critical services, security breaches can lead to severe operational and economic consequences.

Despite extensive efforts in vulnerability detection and attack monitoring, existing approaches struggle to remain effective in cloud-native environments characterized by rapid evolution and inherent heterogeneity. In particular, they exhibit three fundamental limitations: (1) Insufficient understanding of defect patterns …


Safe Control Design For Quadruped Locomotion In Unstructured Environments Using Linear Transfer Operators, Sriram Sundar Krishnamoorthy Shankara Narayanan May 2026

Safe Control Design For Quadruped Locomotion In Unstructured Environments Using Linear Transfer Operators, Sriram Sundar Krishnamoorthy Shankara Narayanan

All Dissertations

Deploying quadruped robots in unstructured, obstacle-rich environments requires control and planning methods that remain safe and reliable despite complex terrain geometry, limited sensing, and inevitable modeling errors. This thesis develops operator-theoretic tools for safe control design of robotic systems using linear transfer operators, with a focus on quadruped locomotion in unstructured environments. The central goal is to develop a unified operator-theoretic framework for safe control design based on the Perron–Frobenius (P–F) and Koopman operators. In particular, the thesis leverages \emph{density functions} to develop safe navigation frameworks in the dual space of densities. In the operator-theoretic perspective, the P–F operator governs …


Intersectionality And Belonging: Higher Education Mathematics, Ashley Natalie May 2026

Intersectionality And Belonging: Higher Education Mathematics, Ashley Natalie

Mathematics and Statistics

Students with intersecting marginalized identities (such as race, gender, socioeconomic status, disability, or first-generation background) often face unique challenges in advanced mathematics that affect confidence, participation, amounting to a sense of belonging. These experiences remain underrepresented in mathematics education research. This qualitative, narrative-based study examines how these students experience classroom dynamics and belonging in upper-level mathematics courses. Semi-structured interviews will be analyzed thematically to identify patterns related to identity, classroom culture, instructor behavior, and peer interactions. Findings aim to highlight barriers and supportive practices, informing more inclusive teaching strategies and equitable learning environments in advanced mathematics.


Intersectionality And Belonging: Higher Education Mathematics, Ashley Williams May 2026

Intersectionality And Belonging: Higher Education Mathematics, Ashley Williams

Mathematics and Statistics

Students with intersecting marginalized identities (such as race, gender, socioeconomic status, disability, or first-generation background) often face unique challenges in advanced mathematics that affect confidence, participation, amounting to a sense of belonging. These experiences remain underrepresented in mathematics education research. This qualitative, narrative-based study examines how these students experience classroom dynamics and belonging in upper-level mathematics courses. Semi-structured interviews will be analyzed thematically to identify patterns related to identity, classroom culture, instructor behavior, and peer interactions. Findings aim to highlight barriers and supportive practices, informing more inclusive teaching strategies and equitable learning environments in advanced mathematics.


Durable, Distributed Llm Inference On Cots Devices, Brycen E. Dunn May 2026

Durable, Distributed Llm Inference On Cots Devices, Brycen E. Dunn

Electronic Theses and Dissertations

The advancement of Large Language Models (LLMs) has fundamentally changed the nature of natural language processing. The substantial memory requirements of frontier models creates a significant barrier to entry, centralizing inference. This thesis presents the design and implementation of a distributed inference framework designed to democratize LLMs by leveraging commodity devices. The framework combines the resources of heterogeneous COTS devices into a unified compute pool, enabling the inference of models exceeding a single device's memory capacity. A novel Task Partitioning Engine (TPE) analyzes model architectures, profiles node capabilities, and supports pipeline and expert parallelism strategies. The primary contribution is a …


Exploration Of Extended Chemical Reaction Networks, Ramiro Santos May 2026

Exploration Of Extended Chemical Reaction Networks, Ramiro Santos

Theses and Dissertations

Chemical Reaction Networks (CRNs) is a well-established model for analyzing distributed and concurrent systems. A central problem studied across CRNs is the reachability problem, which asks whether a target configuration can be obtained from a given initial configuration through a sequence of valid transitions. Classical CRNs are highly expressive but not Turing-universal; their reachability problem is Ackermann-complete, indicating extremely high computational complexity that nevertheless falls short of full universality.

In this thesis, we study Extended Models of Chemical Reaction Networks in which the dynamics of the system are modified. We analyze these models through two fundamental questions. First, simulation, we …