Physical Sciences and Mathematics Commons^™

Automated Reverse Engineering Of Malware To Develop Network Signatures To Match With Known Network Signatures, Dan Sinema

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Illicit software that seeks to steal user information, deny service, or cause general mayhem on computer networks is often discovered after the damage has been done. The ability to discover network behavior of software before a computer network is utilized would allow administrators to protect and preserve valuable resources. Static reverse engineering is the process of discovering in a offline environment how a software application is built and how it will behave. By automating static reverse engineering, software behavior can be discovered before it is executed on client devices. Fingerprints are then built from the discovered behavior which is matched …

Gravitational Wave Astrophysics With Compact Binary Systems, Eric Addison

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Gravitational waves are ripples in the fabric of spacetime that convey information about changing gravitational fields. Large-scale detection projects are currently in operation, and more advanced detectors are being designed and built. Though we have yet to make a direct detection of a gravitational wave signal, upgrades to current detectors are expected to bring the first detections within the next year or two.

Gravitational waves will bring us information about astrophysical phenomena that is complementary to the information gained from photon-based observations (e.g., telescopes and radio receivers). One of the primary sources of gravitational waves are binary systems: two massive …

Decision Making Using Trust And Risk In Self-Adaptive Agent Organization, Kamilia Ahmadi

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Interaction between agents is one of the key factors in multi-agent societies in order to cooperatively execute complex tasks which are beyond the capability of a single agent. In the self-adaptation society, agents try to keep best neighbors around themselves. Agents use history of past iterations to evaluate their neighbors and locally modify their structural links. Main characteristics of this model are its decentralization, dynamicity and no need of external control. This research at first deals with implementing self-adaptive agent organization. Then it focuses on evaluating cooperation peers in decision making. Trust as an evaluation mechanism lies at the core …

Implementation And Application Of The Curds And Whey Algorithm To Regression Problems, John Kidd

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

A common statistical problem is trying to predict two or more variables using a set of predictor variables. The simplest model for this situation is called multivariate linear regression. This method uses each set of predictor variables to predict each of the response variables separately. This approach seems counter-intuitive as any possible relationship between the variables being predicted is ignored.

Breiman and Friedman found a way to take advantage of relationships among the response variables to increase the accuracy of the predictions for each of the predicted variables with an algorithm they called Curds and
Whey. It uses other statistical …

Network Applications And The Utah Homeless Network, Michael A. Snyder

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Graph theory is the foundation on which social network analysis (SNA) is built. With the flood of "big data," graph theoretical concepts and their linear algebraic counterparts are essential tools for analysis in the burgeoning field of network data analysis, in which SNA is a subset. Here we begin with an overview of SNA. We then discuss the common descriptive measures taken on network data as well as proposing new measures specific to homeless networks. We also define a new data structure which we call the location sequence matrix. This data structure makes certain computational network analyses particularly easy. …

Rock Strength Of Caprock Seal Lithologies: Evidence For Past Seal Failure, Migration Of Fluids And The Analysis Of The Reservoir Seal Interface In Outcrop And The Subsurface, Elizabeth Sandra Petrie

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Scientists have proposed that in order to avoid damaging climate change further accumulations of anthropogenic atmospheric carbon dioxide (CO₂) must be limited. One of several proposed techniques for reducing the amount CO₂ reaching the atmosphere is carbon capture and storage (CCS). This emerging technology stores CO₂ Emissions captured from large point sources (i.e. power plants or industrial facilities), in deep geologic formations, including depleted hydrocarbon reservoirs and saline aquifers. For successful CCS design, implementation and appropriate site selection and subsurface trapping mechanisms must be ensured over the 100's to 1000's of year timescale.

A key component …

Traditional Lecture Versus An Activity Approach For Teaching Statistics: A Comparison Of Outcomes, Jennifer L. Loveland

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Many educational researchers have proposed teaching statistics with less lecture and more active learning methods. However, there are only a few comparative studies that have taught one section of statistics with lectures and one section with activity-based methods; of those studies, the results are contradictory. To address the need for more research on the actual effectiveness of active learning methods in introductory statistics, this research study was undertaken.

An introductory, university level course was divided into two sections. One section was taught entirely with traditional lecture. The other section was taught using active learning methods and a minimal amount of …

Molecular Systematics, Historical Biogeography, And Evolution Of Spider Wasps (Hymenoptera: Pompilidae), Juanita Rodriguez

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The study of the diversity and classification of any group of organisms provides a foundation for further scientific studies in ecology, evolution, and conservation. Insects are among the most diverse organisms that inhabit the planet, but knowledge of their diversity and classification is still limited. One understudied group of insects is spider wasps. These are solitary parasitoids that use one spider to lay a single egg. There are approximately 5,000 described species, and many more to be described. Unfortunately, fewer than 10 scientists worldwide study these insects. One reason the group has not been very well studied is the difficulty …

Mesoscale Deformational Features Near Outcrop Analogs Of A Reservoir-Seal Interface: Implications For Seal Failure, Santiago L. Flores

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The boundary that separates reservoir rocks from caprock seals is generally considered a flow barrier for reservoir fluids. Buoyant fluids do no flow through the caprocks because they have low permeability and molecular forces at the base of the caprock resist upward flow. Deformation at the reservoir/caprock boundary may include fractures that increase permeability and lessen the effect of the molecular forces.

The injection and storage of carbon dioxide (CO₂) in porous sandstone with effective top seals below earth’s surface is a possible solution for reducing the amount of human-created CO₂ in the atmosphere. Uplift and erosion …

Pathway Pioneer: A Web-Based Graphical Tool For The Organization And Flux Analysis Of Metabolic Networks, Sumit Kumar Singh

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Every so often the field of genome-scale metabolic networks undergoes radical changes, each bringing its own complexity and challenges. The existing visualization tools, owing to their inability to assist in generating layouts suitable for easy readability and conceptualization, hinder further advancement. The lack of in-depth comprehensible representation of the intricacies of interaction and arrangements within the network topology prevents researchers from being able to advance at a faster speed despite the growing number of networks and systems. The far and wide diverse standards, layout schemas and network formats of the biological realm contribute to the existing challenges of developing visualization …

Pathway Pioneer: A Web-Based Metabolic Network Layout Extension, Harsh Dosi

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The number and complexity of genome-scale metabolic networks have seen a rapid growth in the past 10 years. Today, more than 450 genome-scale metabolic reconstructions of biological systems are characterized and existing models are extended. With the growing influence of these reconstructions on biomedical and biological research, the field has observed a shift from an inward focus on method development to an outward focus on application development.

Static state analysis of metabolic networks in textual format is too cumbersome and time consuming. In addition, visualization and arrangement of these networks to facilitate their analysis is an open research problem. A …

Soil Water Flux Estimates From Streaming Potential And Penta-Needle Heat Pulse Probe Measurements, Pawel J. Szafruga

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Growing populations, coupled with climate change and resource depletion, have heightened concern about water management. The growing need to better manage agricultural systems, including irrigation and fertilizer application, as well the lasting consequences of excess application of nitrogen and other nutrients, could be remedied with an improved method to monitor soil water movement. Despite huge technological advances, a tool to measure soil water flow at the low rates found in the field has not been developed. Current methods lack the precision to provide the needed accuracy to fully understand soil-water dynamics, as well as the ability to provide instantaneous information. …

Structure And Multi-Center Bonding: From Atomic Clusters To Solid Phase Materials, Timur R. Galeev

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The work presented in this dissertation has been focused on structure, stability, and chemical bonding of atomic clusters and solid-state compounds. The common thread was development of theoretical models and methods capable of interpreting bonding and hence, structures of these species. A major part of this work presents joint experimental and theoretical studies of a large series of doped boron clusters. The dissertation introduces a new theoretical tool for interpretation of bonding of solid phase materials in chemically intuitive terms of localized and multi-center bonds. Understanding how interactions between atoms in sub-nano clusters and solid-state compounds determine their structures, physical …

Computational Models Of Intracellular And Intercellular Processes In Developmental Biology, Ahmadreza Ghaffarizadeh

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Systems biology takes a holistic approach to biological questions as it applies mathematical modeling to link and understand the interaction of components in complex biological systems. Multiscale modeling is the only method that can fully accomplish this aim. Mutliscale models consider processes at different levels that are coupled within the modeling framework. A first requirement in creating such models is a clear understanding of processes that operate at each level. This research focuses on modeling aspects of biological development as a complex process that occurs at many scales. Two of these scales were considered in this work: cellular differentiation, the …

Detailed Analysis Of The Domains Of Mtr4 And How They Regulate Helicase Activity, Lacy Leigh Taylor

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The central dogma states that DNA is transcribed into RNA, which is then translated into protein. This concept conveys a minimal view of the role of RNA, portraying it simply as an intermediary between DNA and protein. However, it is now known that the role of RNA in the cell is critical in regulating protein expression both directly and indirectly. RNA in the cell typically goes through modifications to become active (on) and inactive (off) to eventually become targeted for degradation and start the cycle all over again. The protein complex that regulates the proper maturation and degradation of RNA …

Computational Topics In Lie Theory And Representation Theory, Thomas J. Apedaile

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

The computer algebra system Maple contains a basic set of commands for working with Lie algebras and matrices. The purpose of this thesis was to extend the functionality of these Maple packages in a number of important areas. First, programs for defining multiplication in several different types of algebras were created to allow users to perform a wider variety of calculations. Second, commands were created for calculating some basic properties of matrix representations of semisimple Lie algebras. This allows a user to identify a given matrix representation by a collection of integers which do not change when the basis of …

Physically Based Preconditioning Techniques Applied To The First Order Particle Transport And To Fluid Transport In Porous Media, Michael Rigley

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Solving linear systems is at the heart of many scientific applications from the PreAlgebra's student solving for x and y for basic geometry problems to the computational scientist solving billions of equations with billions of variables for weather forecasting, modeling fusion reactions, or web search algorithms. In this study we look at improving the efficiency of solving large linear systems that result from two applications. The first includes linear systems that result from solving differential equations for the movement of atomic particles in particle emitting, void, and absorbing regions. The second includes solving linear systems that result from solving differential …

Family-Wise Error Rate Control In Quantitative Trait Loci (Qtl) Mapping And Gene Ontology Graphs With Remarks On Family Selection, Garrett Saunders

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

One of the great aims of statistics, the science of collecting, analyzing, and interpreting data, is to protect against the probability of falsely rejecting an accepted claim, or hypothesis, given observed data stemming from some experiment. This is generally known as protecting against a Type I Error, or controlling the Type I Error rate. The extension of this protection against Type I Errors to the situation where thousands upon thousands of hypothesis are examined simultaneously is known as multiple hypothesis testing. This dissertation presents an improvement to an existing multiple hypothesis testing approach, the Focus Level method, specific to gene …

A Computer-Aided Training (Cat) System For Short Track Speed Skating, Chenguang Liu

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Short track speed skating was adopted by the International Skating Union in 1967, and upgraded to full winter Olympic sport status in 1992. Even though its history is short compared with long track speed skating, it became popular around the world because it is more intense and more entertaining for audiences. The demands of having a CAT system for gathering and analyzing competition data automatically is raising drastically due to its growing popularity all around the world.

There have been some commercial systems for some other sports, which are able to provide extrinsic feedback information to coaches and athletes. However, …

Beetles, Fungi And Trees: A Story For The Ages? Modeling And Projecting The Multipartite Symbiosis Between The Mountain Pine Beetle, Dendroctonus Ponderosae, And Its Fungal Symbionts, Grosmannia Clavigera And Ophiostoma Montium, Audrey L. Addison

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

As data collection and modeling improve, ecologists increasingly discover that interspecies dynamics greatly affect the success of individual species. Models accounting for the dynamics of multiple species are becoming more important. In this work, we explore the relationship between mountain pine beetle (MPB, Dendroctonus ponderosae Hopkins) and two mutualistic fungi, Grosmannia clavigera and Ophiostoma montium. These species are involved in a multipartite symbiosis, critical to the survival of MPB, in which each species benefits.

Extensive phenological modeling has been done to determine how temperature affects the timing of life events and cold-weather mortality of MPB. The fungi have also …

Hamiltonicity, Pancyclicity, And Cycle Extendability In Graphs, Deborah C. Arangno

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

A significant portion of Graph Theory is devoted to determining the characteristics which guarantee the existence of long cycles.

Long cycles have roles in applications to civil engineering, chemistry, and communications, among many others, but the problem, in and of itself, of determining whether a graph has a cycle of some fixed and typically large length is one of the most important problems of both pure Mathematics and Computer Science.

A cycle containing all the vertices of the graph is called a Hamiltonian cycle, and a graph which possesses such a cycle is said to be Hamiltonian. If …

Linking Montane Soil Moisture Measurements To Evapotranspiration Using Inverse Numerical Modeling, Ling Lv

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Evapotranspiration (ET) and soil moisture play important roles in annual water delivered from snowpack to reservoirs, lakes and streams. Indeed, ET and soil moisture are key factors dictating the performance of the regional climate models in the intermountain west (IMW) of the USA. Water resources management and climate modeling require accurate prediction of ET and areal soil moisture for reliable estimates of ongoing and future water needs. This research has examined ways to estimate ET from four common vegetation types in the IMW (aspen, conifer, grass and sage) using local soil moisture measurements from an advanced instrumentation network located in …

Understanding Local Perceptions And The Role Of Historical Context In Ecotourism Development: A Case Study Of St. Kitts, Amber Greening

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Ecotourism is a popular tool for the conservation of fragile ecosystems and local development of the communities surrounding them. It is widely argued that the key to effective and sustainable ecotourism programs relies on the depth of community involvement and support. This research reveals a better understanding of community members’ perceptions of ecotourism and conservation, and how these perceptions potentially influence participation in current and future ecotourism projects within the villages of Cayon and Keys on the Caribbean island of St. Kitts. Data were collected through several qualitative methods including: face-to-face surveys with Cayon and Keys villagers; interviews with government …

The Human Dimensions Of Climate Change: Smallholder Perception And Adaptation In The Loess Plateau Region Of China, Morey Burnham

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Climate change poses problems for agriculture in the Global South. Smallholders in the Global South are often considered highly vulnerable to climate change as a result of their farms being located in marginal environments, their insecure land tenure and lack of technology, and their participation in unpredictable regional and world markets. Analyzing how smallholders perceive climate change and attendant risk, the factors that enable and constrain their adaptive capacity, and the social impacts of state led projects designed to mitigate the impacts of climate change may provide crucial insights for developing effective climate adaption projects and policies. This research examined …

Are Experimentally Derived Estimates Of Thermal Tolerance Useful In Interpreting Species Distribution Models, Iva Sokolovska

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Species distribution models are frequently used in ecology to predict the spatial and temporal occurrence of organisms. Direct interpretation of these models assumes that the relationships between the organisms and their environment are manifestations of causal mechanisms. However, in general, the mechanisms producing these associations have not been experimentally validated, which questions our confidence in their interpretation and application. Temperature is one of the most important factors influencing the fitness and distribution of aquatic organisms, and studying the thermal physiology of aquatic invertebrates could provide a useful approach for validating predictions of the species distribution models.

Experimental thermal tolerance studies, …

On The Complexity Of Collecting Items With A Maximal Sliding Agent, Pedro J. Tejada

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

We study the computational complexity of collecting items inside a grid map with obstacles, using an agent that always slides to the maximal extend, until it is stopped by an obstacle. An agent could be, for example, a robot or a vehicle, while obstacles could be walls or other immovable objects, and items could be packages that need to be picked up.

This problem has very natural applications in robotics. The restricted type of motion of the agent naturally models movement on a frictionless surface, and movement of a robot with limited sensing capabilities and thus limited localization. For example, …

Improving Reuse And Maintainability Of Communication Software With Conversation-Aware Aspects, Ali Raza

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Inter-process communications (IPC) are ubiquitous in today’s software systems, yet they are rarely treated as first-class programming concepts. Implementing crosscutting concerns for message-based IPC are difficult, even using aspect-oriented programming languages (AOPL) such as AspectJ. Many of these challenges are because the context of a communication-related crosscutting concern is often a conversation consisting of message sends and receives. Hence, developers typically have to implement communication protocols manually using primitive operations, such as connect, send, receive, and close. This dissertation describes an extension to AspectJ, called CommJ, with which developers can implement communication-related concerns in cohesive and loosely coupled aspects. It …

Conformal Gravity And Time, Jeffrey Shafiq Hazboun

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Within the last year, two acclaimed physics experiments have probed further into the extremes of our physical understanding. The Large Hadron Collider, the largest experiment ever constructed, has detected a Higgs boson, which establishes a mass scale for the fundamental particles. The Planck mission satellite has made the most accurate measurements of the cosmic microwave background radiation, which is the oldest data about the early universe we are currently able to measure directly. The mission corroborated the proportions of dark matter and dark energy are all very close to expected values. While these experiments have helped solidify the current working …

Climate Forcings On Groundwater Variations In Utah And The Great Basin, Kirsti A. Hakala

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Groundwater levels over northern Utah have undergone a declining trend since the 1960’s. This trend has made apparent the need to understand the relationship between climate and groundwater resources. Such necessary information is already in dire need in places such as California. At the close of 2013, California had experienced its driest year in recorded history, with severe drought continuing for the foreseeable future. Utah is the second driest state in the U.S., and therefore has been paying close attention to California’s current water crises. Water resource projections may prove to be one of the most vital pieces of information …

Bay Of Bengal: Coupling Of Pre-Monsoon Tropical Cyclones With The Monsoon Onset In Myanmar, Boniface Opoku Fosu

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Myanmar remained largely closed to the world through political instability for several years, when it continued to suffer terribly at the hands of nature that remained largely unknown. Of note is the period between 2008 and 2013, during which the country suffered at least eight major natural calamities that killed more than 141,000 people and affected 3.2 million. The worst of these was Cyclone Nargis in May 2008 that killed more than 130,000. With an estimated $4 billion in damages, Nargis remains the deadliest and most destructive named cyclone ever to have occurred in the North Indian Ocean. Recent studies …