Physical Sciences and Mathematics Commons^™

Modeling Disorder In Proteins Yields Insights Into The Evolution Of Stability And Function, Jonathan Huihui

Electronic Theses and Dissertations

The central dogma of molecular biology dictates that a DNA sequence codes for an RNA sequence, which in turn codes for a sequence of amino acids that comprises a protein. Proteins are responsible with performing myriad functions within living organisms and most proteins require a folded structure in order to perform their function. The protein's structure is the direct link from sequence to function. This is known as the sequence - structure - function paradigm. However, this does not mean that the unfolded state is unimportant. In order to properly model the stability of the folded state, one needs to …

Photoassisted Synthesis Of Complex Polyheterocycles Via Rational Design Of Tailored Photoprecursors, Tina Alanna Holt

Electronic Theses and Dissertations

Natural products remain the most common source for drug leads, although diversity-oriented synthesis of unnatural complex molecules is gaining momentum. Our lab has been developing experimentally simple and straightforward approaches to complex molecular architectures via photochemical reactions involving a minimal number of experimental steps. In order to achieve this, photoprecursors were assembled via high yielding reactions. Next, we deployed photoinduced cycloadditions to create complex 3-dimentional structures. Lastly, with this obtained primary photoproduct, post-photochemical transformations were used to further grow its scaffold complexity.

One method to increase scaffold complexity is the [4+2] intramolecular cycloadditions of azaxylylenes, which are developed through standard …

The Design, Development, And Determination Of A Virtual Reality Classroom, Victoria Alexxis Reddington

Electronic Theses and Dissertations

The COVID-19 pandemic has radically changed the way students learn and engage with their peers and instructors. Likewise, instructors have had to quickly transform their course materials to suit the online classroom format. Results from a survey of students and instructors at the University of Denver revealed that perceived levels of learning and collaboration were lessened with the transition to online learning. Moreover, the sense of presence in an educational atmosphere with other individuals was reported to be significantly stronger in a real physical classroom, as compared to an online classroom. This thesis therefore seeks to provide a new, alternative …

Reconstruction Of Ancient Microbial Genomes From The Human Gut, M. C. Wibowo, Z. Yang, M. Borry, A. Hubner, K. D. Huang, B. T. Tierney, S. Zimmerman, F. Barajas-Olmos, C. Contreras-Cubas, H. Garcia-Ortiz, A. Martinez-Hernandez, J. M. Luber, K. Reinhard Et Al.

School of Natural Resources: Faculty Publications

No abstract provided.

Developing An Artificial Intelligence Framework To Assess Shipbuilding And Repair Sub-Tier Supply Chains Risk, Rafael Diaz, Katherine Smith, Beatriz Acero, Francesco Longo, Antonio Padovano

VMASC Publications

The defense shipbuilding and repair industry is a labor-intensive sector that can be characterized by low-product volumes and high investments in which a large number of shared resources, technology, suppliers, and processes asynchronously converge into large construction projects. It is mainly organized by the execution of a complex combination of sequential and overlapping stages. While entities engaged in this large-scale endeavor are often knowledgeable about their first-tier suppliers, they usually do not have insight into the lower tiers suppliers. A sizable part of any supply chain disruption is attributable to instabilities in sub-tier suppliers. This research note conceptually delineates a …

An Empirical Investigation Of U.K. Environmental Targets Disclosure: The Role Of Environmental Governance And Performance, Tantawy Moussa, Amr Kotb, Akrum Helfaya

All Works

Although an increasing number of companies have publicly declared environmental targets (ETs), scant research has been conducted in this area. This study, therefore, investigates the extent of corporate environmental targets disclosure (ETD) and empirically examines whether environmental governance and performance influence the ETD of companies in the U.K. during the 2005–2013 period. We find that firms show a large degree of variability and inconsistency in their reporting of ETs. The results indicate that U.K. firms, particularly those with high environmental sensitivity, tend to disclose symbolic soft or semi-hard ETs to manage stakeholder perceptions and legitimize their existence. Moreover, Global Reporting …

A Comparison Of The Removal Of Estrogen Between Different Wastewater Treatment Processes, Danielle J. Jones

Cal Poly Humboldt theses and projects

Pharmaceuticals are found in water systems and are classified as contaminants due to their adverse effects on numerous types of aquatic organisms. Estradiol, a natural occurring estrogen and ethinylestradiol, a common synthetic estrogen found in birth control, are a class of pharmaceuticals called endocrine-disruptive contaminants (EDC). These contaminants have been shown to cause developmental delays in fish as well as feminizing male fish in concentrations as low as 1 ng/L for both estradiol and ethinylestradiol, and bioaccumulating in mollusks and oysters. There are many natural and human-assisted methods for removing pharmaceuticals in water, and they are dependent on both the …

Can A Remote Sensing Approach With Hyperspectral Data Provide Early Detection And Mapping Of Spatial Patterns Of Black Bear Bark Stripping In Coast Redwoods?, Shayne R. Magstadt

Cal Poly Humboldt theses and projects

The prevalence of black bear (Ursus americanus) bark stripping in commercial redwood (Sequoia sempervirens) timer stands has been increasing in recent years. This stripping is a threat to commercial timber production because of the deleterious effects on redwood tree fitness. This study sought to unveil a remote sensing method to detect these damaged trees early and map their spatial patterns. By developing a timely monitoring method, forest timber companies can manipulate their timber harvesting routines to adapt to the consequences of the problem. We explored the utility of high spatial resolution UAV-collected hyperspectral imagery as a …

Effects Of Large Wood Restoration On Coho Salmon In A Northern California Watershed: A Before-After-Control-Impact Experiment, Natalie B. Okun

Cal Poly Humboldt theses and projects

Substantial time, money, and effort are invested in river and stream restoration projects to aid in the recovery of imperiled salmonid populations, but there is little evidence that these efforts have had lasting positive impacts on juvenile fish growth and survival. To assess the effectiveness of large woody debris (LWD) restoration, which is one of the most common restoration practices, I evaluated the growth and survival response of endangered Central California Coast coho salmon (Oncorhynchus kisutch) in a paired watershed before-after impact-control (BACI) study. To determine if LWD supplementation influenced coho salmon growth and survival, two neighboring, similar …

Response Of Coastal Ichthyoplankton Assemblages Off Northern California To Seasonal Oceanographic And Climate Variability, Blair M. Winnacott

Cal Poly Humboldt theses and projects

This study analyzed samples collected along the Trinidad Head Line (41°N) to characterize variability in the ichthyoplankton assemblage in coastal waters off northern California from late 2007 through 2019, a period during which a major marine heatwave (MHW; late 2014-16) strongly perturbed the ecosystem. I augmented visual identification with genetic techniques to resolve the species composition of visually cryptic larval rockfishes (Sebastes spp.). While taxonomic composition off northern California was largely similar to studies off Oregon and Washington, and cross-shelf structure and seasonal patterns in species’ abundance were generally consistent with the distribution and phenology of parental stocks, interannual …

2′-3′-Cyclic Nucleotide 3′-Phosphodiesterase Inhibition By Organometallic Vanadium Complexes: A Potential New Paradigm For Studying Cns Degeneration, David C. Platt, Jonathan Rink, Kamaljit Braich, Craig C. Mclauchlan, Marjorie A. Jones

Faculty Publications – Chemistry

The enzyme, 2′-3′-cyclic nucleotide 3′-phosphodiesterase (CNPase) has been known for over fifty years. Nevertheless, the roles this membrane-bound enzyme play have yet to be described completely. Recently, there has been renewed interest in the study of this enzyme due to studies that suggest that CNPase plays a role in the mediation of cellular inflammatory responses in renal and nervous system tissues. Also, this enzyme, found in oligodendrocytes of the nervous system, has been reported to participate in significant regulatory changes associated with age which may be involved in age-related CNS degeneration. Consequently, development of CNPase inhibitors is of interest and …

An Assessment Of The Impacts Of Social Media Inputs And Court Case Information On Mitigating Insider Threats, Robert Jones

CCE Theses and Dissertations

The insider threat is a global problem that impacts organizations and produces a gamut of undesired outcomes. Businesses often experience lost revenue and stolen trade secrets, which can leave a tarnished reputation. Insider threats can also cause harm to individuals and national security. Past efforts have not mitigated the problem in its entirety. Documented instances of insider threats are as recent as March 2020. Many researchers have focused on monitoring technologies and relying on human monitoring in a reactive posture. An ideal solution would scrutinize an individual’s character and ascertain whether unique traits associated with actors of insider threats are …

Examining The Influence Of Perceived Risk On The Selection Of Internet Access In The U.S. Intelligence Community, Tyler Michael Pieron

CCE Theses and Dissertations

Information technology security policies are designed explicitly to protect IT systems. However, overly restrictive information security policies may be inadvertently creating an unforeseen information risk by encouraging users to bypass protected systems in favor of personal devices, where the potential loss of organizational intellectual property is greater.

Current models regarding the acceptance and use of technology, Technology Acceptance Model Version 3 (TAM3) and the Unified Theory of Acceptance and Use of Technology Version 2 (UTAUT2), address the use of technology in organizations and by consumers, but little research has been done to identify an appropriate model to begin to understand …

Identifying The Impact Of Perceived Shared Cultural Values On Knowledge Sharing Through A Social Media Application, Mel Anthony Tomeo

CCE Theses and Dissertations

Knowledge sharing (KS) has been determined by many researchers as an important tool for problem-solving experiences and achieving success. Recent studies have explained KS as an activity in which knowledge is exchanged through individuals or between organizations. KS can help facilitate decision-making capabilities, stimulate cultural change, and create innovation. Through KS, individuals and organizations can capture explicit and tacit knowledge to save time and money. Previous studies have indicated a lack of research in how perceived shared cultural values impact KS through a social media application.

The purpose of this research was to add new information to the body of …

Investigation Of Ant Colony Optimization Implementation Strategies For Low-Memory Operating Environments, Douglas Hale

CCE Theses and Dissertations

In search guided by meta-heuristics, a fundamental tradeoff exists between exploitation of good solutions (intensification) and exploration of the solution space for better solutions (diversification). Over-exploitation can limit the search to suboptimal solutions while over-exploration can reduce the efficiency of the overall search. Ant Colony Optimization (ACO) is a well-known meta-heuristic inspired by biological ants for solving NP-hard combinatorial search problems like the Traveling Salesman Problem (TSP). In nature, biological ant colonies navigate to find efficient paths around complex obstacles by depositing and following simple chemicals called pheromones. ACO algorithms model this behavior by implementing sets of artificial ants which …

Improving Employees’ Compliance With Password Policies, Enas Albataineh

CCE Theses and Dissertations

Employees’ lack of compliance with password policies increases password susceptibility, which leads to financial damages to the organizations as a result of information disclosure, fraud, and unauthorized transactions. However, few studies have examined what motivates employees to comply with password policies.

The purpose of this quantitative cross-sectional study was to examine what factors influence employees’ compliance with password policies. A theoretical model was developed based on Protection Motivation Theory (PMT), General Deterrence Theory (GDT), Theory of Reasoned Action (TRA), and Psychological Ownership Theory to explain employees’ compliance with password policies.

A non-probability convenience sample was employed. The sample consisted of …

Increasing Software Reliability Using Mutation Testing And Machine Learning, Michael Allen Stewart

CCE Theses and Dissertations

Mutation testing is a type of software testing proposed in the 1970s where program statements are deliberately changed to introduce simple errors so that test cases can be validated to determine if they can detect the errors. The goal of mutation testing was to reduce complex program errors by preventing the related simple errors. Test cases are executed against the mutant code to determine if one fails, detects the error and ensures the program is correct. One major issue with this type of testing was it became intensive computationally to generate and test all possible mutations for complex programs.

This …

An Empirical Assessment Of Users' Information Security Protection Behavior Towards Social Engineering Breaches, Nisha Jatin Patel

CCE Theses and Dissertations

User behavior is one of the most significant information security risks. Information Security is all about being aware of who and what to trust and behaving accordingly. Due to technology becoming an integral part of nearly everything in people's daily lives, the organization's need for protection from security threats has continuously increased. Social engineering is the act of tricking a user into revealing information or taking action. One of the riskiest aspects of social engineering is that it depends mainly upon user errors and is not necessarily a technology shortcoming. User behavior should be one of the first apprehensions when …

Interpretable Machine Learning Model For Clinical Decision Making, Ali El-Sharif

CCE Theses and Dissertations

Despite machine learning models being increasingly used in medical decision-making and meeting classification predictive accuracy standards, they remain untrusted black-boxes due to decision-makers' lack of insight into their complex logic. Therefore, it is necessary to develop interpretable machine learning models that will engender trust in the knowledge they generate and contribute to clinical decision-makers intention to adopt them in the field.

The goal of this dissertation was to systematically investigate the applicability of interpretable model-agnostic methods to explain predictions of black-box machine learning models for medical decision-making. As proof of concept, this study addressed the problem of predicting the risk …

Development Of A Social Engineering Exposure Index (Sexi) Using Open-Source Personal Information, William Shawn Wilkerson

CCE Theses and Dissertations

Millions of people willingly expose their lives via Internet technologies every day, and even the very few ones who refrain from the use of the Internet find themselves exposed through data breaches. Billions of private information records are exposed through the Internet. Marketers gather personal preferences to influence shopping behavior. Providers gather personal information to deliver enhanced services, and underground hacker networks contain repositories of immense data sets. Few users of Internet technologies have considered where their information is going or who has access to it. Even fewer are aware of how decisions made in their own lives expose significant …

A Study Of Factors That Influence Symbol Selection On Augmentative And Alternative Communication Devices For Individuals With Autism Spectrum Disorder, William Todd Dauterman

CCE Theses and Dissertations

According to the American Academy of Pediatrics (AAP), 1 in 59 children are diagnosed with Autism Spectrum Disorder (ASD) each year. Given the complexity of ASD and how it is manifested in individuals, the execution of proper interventions is difficult. One major area of concern is how individuals with ASD who have limited communication skills are taught to communicate using Augmentative and Alternative Communication devices (AAC). AACs are portable electronic devices that facilitate communication by using audibles, signs, gestures, and picture symbols. Traditionally, Speech-Language Pathologists (SLPs) are the primary facilitators of AAC devices and help establish the language individuals with …

Spatial Variability Of Sediment Amorphous Silica And Its Reactivity In A Northern Gulf Of Mexico Estuary And Coastal Zone, Elliot J. Kemp, Ryan R. Roseburrough, Emily A. Elliott, Jeffrey W. Krause

Gulf and Caribbean Research

No abstract provided.

Phase Diagram, Stability And Magnetic Properties Of Nonlinear Excitations In Spinor Bose-Einstein Condensates, Garyfallia Katsimiga, Simeon I. Mistakidis, P. Schmelcher, P. G. Kevrekidis

Physics Faculty Research & Creative Works

We Present The Phase Diagram, The Underlying Stability And Magnetic Properties As Well As The Dynamics Of Nonlinear Solitary Wave Excitations Arising In The Distinct Phases Of A Harmonically Confined Spinor F = 1 Bose-Einstein Condensate. Particularly, It Is Found That Nonlinear Excitations In The Form Of Dark-Dark-Bright Solitons Exist In The Antiferromagnetic And In The Easy-Axis Phase Of A Spinor Gas, Being Generally Unstable In The Former While Possessing Stability Intervals In The Latter Phase. Dark-Bright-Bright Solitons Can Be Realized In The Polar And The Easy-Plane Phases As Unstable And Stable Configurations Respectively; The Latter Phase Can Also Feature …

Advanced Raman Spectroscopy Detection Of Oxidative Damage In Nucleic Acid Bases: Probing Chemical Changes And Intermolecular Interactions In Guanosine At Ultralow Concentration, Francesca Ripanti, Claudia Fasolato, Flavia Mazzarda, Simonetta Palleschi, Marina Ceccarini, Chunchun Li, Margherita Bignami, Enrico Bodo, Steven E.J. Bell, Filomena Mazzei, Paolo Postorino

Bioelectrics Publications

DNA/RNA synthesis precursors are especially vulnerable to damage induced by reactive oxygen species occurring following oxidative stress. Guanosine triphosphates are the prevalent oxidized nucleotides, which can be misincorporated during replication, leading to mutations and cell death. Here, we present a novel method based on micro-Raman spectroscopy, combined with ab initio calculations, for the identification, detection, and quantification of oxidized nucleotides at low concentration. We also show that the Raman signature in the terahertz spectral range (<100 >cm(-1)) contains information on the intermolecular assembly of guanine in tetrads, which allows us to further boost the oxidative damage detection limit. Eventually, we …

Maritime Surveillance In The Gulf Of Suez : Identifying Opportunities For Future Improvements, Esslam Hassan, Dimitrios Dalaklis

Conference Papers

The Gulf of Suez (GOS) is one of the most important waterways in the world. Furthermore, issues like maritime safety, avoidance of accidents and effective conduct of navigation, as well as protection of the marine environment in the GOS are always among the highest priorities of Egyptian legislators. As a result, maritime surveillance in the area under discussion is facilitated by a technologically advanced Vessel Traffic Management System (VTMS) that has been established by the competent authority as a cost-effective measure to reduce and mitigate risks in accordance with international standards and guidelines. The main aim of this paper is …

Missense Mutations In The Gamma Crystallins And Mechanisms Of Lens Opacity, Wenjuan Hou

Legacy Theses & Dissertations (2009 - 2024)

Cataract, or clouding of the ocular lens, among the most common types of eye diseases, is the leading cause of blindness worldwide. With the opacity or clouding of the lens, light incident on the lens is scattered rather than being transmitted and is thus prevented from focusing on the retina. The lens becomes cataractous due to a large number of reasons, among which aging and genetic mutations are two of the most common factors. Clouding of the center of the lens or nuclear opacity, is the most frequently observed type of age-onset cataract, as well as inherited, congenital cataract [1, …

Land-Atmosphere-Cloud Interaction : Sensitivity Of Weather Forecast Models To Complex Land Surface Conditions In New York State, Lanxi Min

Legacy Theses & Dissertations (2009 - 2024)

The land-atmosphere coupling system is important for the simulation of key quantities like surface temperature, precipitation, and radiative energy. Over the complex terrain of New York State, the land-atmosphere coupling process is quite complex and misrepresenting the coupling processes could lead to strong biases. Evaluating the weather forecasting models is vital for enhancing understanding of physical and processes and further improving the model forecasting. A comprehensive observation network, the New York State Mesonet (NYSM) provides a great opportunity to investigate how the land atmosphere coupling process are simulated over complex terrain region. This research includes three components. In first part, …

Detecting Face Mask Usage Trends In Social Media With Machine Learning, Seth Ockerman

Student Summer Scholars Manuscripts

The use of face masks to prevent disease spread among the general population has become widespread due to the COVID-19 pandemic. The ability to accurately detect and monitor the trends in face mask usage is crucial to understanding and predicting hotspot areas for both current and future pandemics. In this work, we investigate the detection of face masks in social media images using deep learning, specifically convolutional neural networks (CNNs). The use of CNNs for face mask detection has been explored by the research community; however, a common limiting factor has been the lack of a large, diverse image dataset …

Pre-Stack Seismic Inversion And Amplitude Variation With Offset (Avo) Attributes As Hydrocarbon Indicators In Carbonate Rocks: A Case Study From The Illinois Basin, Jacob T. Murchek

Browse all Theses and Dissertations

Amplitude anomalies in pre-stack seismic data have widely been used in the oil and gas industry as a risk analysis tool when exploring for hydrocarbons. AVO analysis is most often applied to poorly consolidated Tertiary rocks due to the compressibility of these strata when natural gas and porosity are present. In contrast, well-lithified carbonate rocks are less prone to producing a pre-stack amplitude response due to the rigidity of their frame. Pre-stack seismic data of a 2-D seismic profile were conditioned and interpreted to identify amplitude variation with offset (AVO) attributes corresponding to the presence of hydrocarbons within the North …

Analysis Of Classifier Weaknesses Based On Patterns And Corrective Methods, Nicholas Skapura

Browse all Theses and Dissertations

Classification is an important branch of machine learning that impacts many areas of modern life. Many classification algorithms (classifiers for short) have been developed. They have highly different levels of sophistication and classification accuracy. Classification problems often have highly different levels of hardness and complexity. Practitioners of classification modeling need better understanding of those algorithms in order to select the optimal algorithm for given classification problems. Researchers of classification need new insight on how given classifiers are weak and how they can be improved by correcting their classification errors. This dissertation introduces new tools and concepts to analyze classifier weakness …