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Process Intensification For Carbon Sequestration By Resonant Vibratory Mixing, Amirhosein Riahi Aug 2024

Process Intensification For Carbon Sequestration By Resonant Vibratory Mixing, Amirhosein Riahi

Graduate Theses & Non-Theses

Due to the excessive consumption of fossil fuels, which leads to significant greenhouse gas emissions and rapid climate change, it is crucial to develop various Carbon Capture and Sequestration strategies. CO2 sequestration in solid, porous adsorbents like low-cost biochar emerges as a promising method to achieve this goal. However, slow adsorption kinetics are one of the issues that limit the widespread use of biochar. While the characteristics of biochar are important and impact CO2 adsorption, the conditions under which adsorption occurs are equally critical.

In this work, a novel process intensification strategy, namely Low-Frequency High Amplitude resonant vibratory …


Computational Fluid Dynamics Modeling Of 12.25” Horizontal Wellbores To Identify The Effects Of Pipe Rotation On Cuttings Transport Efficiency, David Rathgeber Aug 2024

Computational Fluid Dynamics Modeling Of 12.25” Horizontal Wellbores To Identify The Effects Of Pipe Rotation On Cuttings Transport Efficiency, David Rathgeber

Graduate Theses & Non-Theses

As global demand for oil and gas continues to rise alongside pressures to curb climate change, Exploration and Production (E&P) companies look to reduce their surface footprint and increase drilling efficiency through longer horizontal well drilling. In addition, the depletion of conventional reservoirs is causing E&P companies to target more difficult reservoirs, often miles offshore (Gupta et al., 2014; Meader et al., 2000a). The increased horizontal reach of these wells often leads to increased challenges in adequate hole cleaning during drilling operations. Efficient hole cleaning becomes a greater challenge in high-angle wells, with gravitational forces causing pipe eccentricity, flow channeling, …


Radiation-Tolerant Thin-Film Reference Electrodes And Potentiometric Sensors, Bingyuan Zhao, Alexander Wei Aug 2024

Radiation-Tolerant Thin-Film Reference Electrodes And Potentiometric Sensors, Bingyuan Zhao, Alexander Wei

Department of Chemistry Faculty Publications

The integration of electronic sensors into single-use systems for bioprocessing is challenged by their sensitivity to sterilizing γ-irradiation. This challenge also applies to reference electrodes (REs), whose potentials may be destabilized upon ionization and drift over time. Here we evaluate the performance of thin-film Ag/AgCl REs over a two-month window following γ-ray sterilization using a 60Co source. γ-REs display a characteristic voltage decay function ascribed to the dissipation of radiation-induced charge defects, and exhibit long-term potentiometric stability when stored in phosphate-buffered saline (PBS) with a 95% confidence interval of 4 mV over 60 days. γ-REs have a mean insensitivity (inertness) …


Surface Patterning On Zirconia Dental Implants Via Laser-Induced Shockwave Imprinting, Inomjon Majidov Aug 2024

Surface Patterning On Zirconia Dental Implants Via Laser-Induced Shockwave Imprinting, Inomjon Majidov

Masters Theses & Specialist Projects

Zirconia is rapidly becoming a preferred alternative to titanium in dental applications, primarily due to its aesthetic resemblance to natural teeth. This material’s tooth-like color avoids the aesthetic issues associated with the grey metal tint of titanium implants. Additionally, zirconia is hypoallergenic, making it an ideal choice for patients with metal sensitivities or allergies. Despite these advantages, zirconia generally exhibits lower biocompatibility and osseointegration compared to titanium implants. This study investigates laser-assisted, controlled imprinting technique on zirconia surfaces to enhance these properties. Our research used zirconia pellets, produced from powdered monoclinic zirconia pressed in a pellet press machine. Two methods …


Localized Hermite Method Of Approximate Particular Solutions, Kwesi Acheampong Aug 2024

Localized Hermite Method Of Approximate Particular Solutions, Kwesi Acheampong

Dissertations

A localized Hermite method of approximate particular solutions (LHMAPS) is presented in this dissertation. This method is designed to improve the accuracy of the localized method of approximate particular solutions (LMAPS) for solving partial differential equations. LMAPS is a strong-form method that defines local radial basis function approximations to the solution values at a group of collocation points before applying the differential operator to this approximation function. Based on the LMAPS's local scheme, LHMAPS seeks Hermite-type local approximations based on both function values and derivatives. Numerical experiments validate the superior accuracy of the proposed method to the LMAPS by solving …


Application Of Agent-Based Simulation And Game Theory In Evaluating Implementation Of Whole Genome Sequencing In Treating Lung Cancer, Fateme Ghalenoei Aug 2024

Application Of Agent-Based Simulation And Game Theory In Evaluating Implementation Of Whole Genome Sequencing In Treating Lung Cancer, Fateme Ghalenoei

Master's Theses

Cancer, particularly lung cancer, presents significant diagnostic and economic challenges globally. Timely diagnosis and cost management play pivotal roles in treatment success. A biomarker is any measurable molecule in blood, bodily fluids, or tissues, indicating the potential presence of an abnormal bodily process, condition, or disease. Biomarker testing is a laboratory test in oncology that is used in the selection of targeted cancer treatments and to help avoid ineffective treatments. Whole Genome Sequencing (WGS), is a biomarker test which while more comprehensive, comes at a higher cost. This study proposes an agent-based simulation model within a game-theoretic framework to examine …


Unrefined And Milled Ilmenite As A Cost-Effective Photocatalyst For Uv-Assisted Destruction And Mineralization Of Pfas, Eustace Y. Fernando, Zhiming Zhang Aug 2024

Unrefined And Milled Ilmenite As A Cost-Effective Photocatalyst For Uv-Assisted Destruction And Mineralization Of Pfas, Eustace Y. Fernando, Zhiming Zhang

Henry M. Rowan College of Engineering Departmental Research

Per- and polyfluoroalkyl substances (PFAS) are fluorinated and refractory pollutants that are ubiquitous in industrial wastewater. Photocatalytic destruction of such pollutants with catalysts such as TiO2 and ZnO is an attractive avenue for removal of PFAS, but refined forms of such photocatalysts are expensive. This study, for the first time, utilized milled unrefined raw mineral ilmenite, coupled to UV-C irradiation to achieve mineralization of the two model PFAS compounds perfluorooctanoic acid (PFOA) and perfluoro octane sulfonic acid (PFOS). Results obtained using a bench-scale photocatalytic reactor system demonstrated rapid removal kinetics of PFAS compounds (>90% removal in less than 10 …


Impact Of Equipment Type On Measured Particle Size Of Civil Engineering Materials, Tanner Turben Aug 2024

Impact Of Equipment Type On Measured Particle Size Of Civil Engineering Materials, Tanner Turben

Graduate Theses and Dissertations

Particle size analysis (PSA) captures the size distribution of fine-grained or emulsified materials with particles generally smaller than 1000 microns. Asphalt emulsions and many other civil engineering materials do not leverage PSA for material specifications or acceptance despite the insight into material performance and quality gained through understanding the particle size. The objectives of this study are to compare PSA measurement principles by testing 13 civil engineering materials by laser diffraction, Coulter counter, and microscopy and to develop a draft standard procedure for asphalt emulsion PSA. Asphalt emulsions, cementitious materials, sands, clays, and biological samples were selected to represent a …


Assessing Soil Properties & Suitability For Optimized Irrigation Development In Sudan, Northern Africa, Suhib O. Hamid Aug 2024

Assessing Soil Properties & Suitability For Optimized Irrigation Development In Sudan, Northern Africa, Suhib O. Hamid

Department of Agricultural and Biological Systems Engineering: Masters Project Reports

In Chapter 1, soil properties essential for efficient irrigation are thoroughly assessed. Factors such as soil texture, infiltration rates, and nutrient content are analyzed to provide insights into the selection of modern irrigation systems. Utilizing data collected from 3,192 locations through GPS and laboratory analyses, alongside sophisticated ranking systems, the research determines the most suitable irrigation methods for specific soil series. Findings highlight the remarkable efficiency of drip irrigation across various soil types, contrasting with the consistently lower performance of surface irrigation. The chapter emphasizes the significance of considering soil variability, evapotranspiration, and investment factors in selecting irrigation methods for …


Genetically-Encoded Optical Barcodes For Single-Cell Analysis, Daniel Pritko Aug 2024

Genetically-Encoded Optical Barcodes For Single-Cell Analysis, Daniel Pritko

All Theses

Cell barcodes are capable of being used to answer many different biological questions. They have been used to track the lineage of cells to identifying the function of a gene. While there are multiple different methods to creating cell barcodes, they are limited in their scalability and application. In a previous publication we propose and computationally prove an optical single-cell barcoding method that bridges fast and scalable readouts with the benefits of genetic encoding. In this approach fluorescent proteins (fps) are combined to form fluorescent barcodes that can then be analyzed using a spectral flow cytometer. Here, we test the …


Heat Treatment Post-Processing For The Improved Mechanical Properties Of Scalmalloy® Processed Via Directed Energy Deposition, Rachel Boillat-Newport, Sriram Praneeth Isanaka, Frank Liou Aug 2024

Heat Treatment Post-Processing For The Improved Mechanical Properties Of Scalmalloy® Processed Via Directed Energy Deposition, Rachel Boillat-Newport, Sriram Praneeth Isanaka, Frank Liou

Mechanical and Aerospace Engineering Faculty Research & Creative Works

As high-strength aluminum alloys present several processability issues with additive manufacturing (AM), Scalmalloy®, an Al-Mg-Sc-Zr-based alloy, has been developed. This alloy is age-hardenable, allowing it to precipitate out a strengthening precipitate phase, Al3(Sc,Zr). The manufacturer recommends a single-stage aging treatment at 325 °C for 4 h; however, the majority of the literature studies utilize a powder bed processing known as selective laser melting (SLM) over powder-fed processing directed energy deposition (DED). This study addresses the lack of information on heat treatments for DED fabrication by exploring the application of artificial aging temperatures of 300–400 °C for 2, 4, and 6 …


Introduction To Neuroengineering, Mercedes Terry, Abigail Tubbs, Blair Dupre, Brandon Fugger, Enrique Alvarez Vazquez Aug 2024

Introduction To Neuroengineering, Mercedes Terry, Abigail Tubbs, Blair Dupre, Brandon Fugger, Enrique Alvarez Vazquez

Open Educational Resources

"Introduction to Neuroengineering" serves as a comprehensive guide to the fast evolving field at the intersection of neuroscience, engineering, and technology. This book covers foundational concepts like neuron structure, action potentials, and neural modeling, moving through advanced topics like brain-computer interfaces (BCIs), neurostimulation, and imaging technologies (EEG, MEG, fMRI). Each chapter combines theory with practical exercises and lab examples, accessible through a GitHub repository to enhance hands-on learning. Aimed at students, educators, and professionals, this resource offers a foundation and inspiration for innovation in neuroengineering, promoting ongoing exploration in this impactful field.


Penetration Thresholds Of Porcine Limbs For Low Sectional Density Projectiles In High-Rate Impact, Joseph Lesueur, Jared Michael Koser, Carolyn E. Hampton, Michael Kleinberger, Frank A. Pintar Aug 2024

Penetration Thresholds Of Porcine Limbs For Low Sectional Density Projectiles In High-Rate Impact, Joseph Lesueur, Jared Michael Koser, Carolyn E. Hampton, Michael Kleinberger, Frank A. Pintar

Biomedical Engineering Faculty Research and Publications

Introduction

With similar prevalence to injuries from fires, stings, and natural disasters, soft tissue injuries may occur from fireworks, industrial accidents, or other explosives. Surgeons are less familiar with treating high-velocity penetration from small debris, which may increase the chance of infection and subsequent fatality. Penetration risk curves have been developed to predict V50, the velocity with 50% probability of penetration, for various sized projectiles. However, there has been limited research using nonmetallic materials to achieve lower density projectiles less than 1 g cm−2, such as sand or rocks.

Material and Methods

To emulate the size and density …


Local Charge Distortion Due To Cr In Ni-Based Concentrated Alloys, Jacob Fischer Aug 2024

Local Charge Distortion Due To Cr In Ni-Based Concentrated Alloys, Jacob Fischer

All Theses

Due to the presence of multiple elements consisting of a range of atomic radii, local lattice distortion (LLD) is commonly observed in concentrated (and high entropy) alloys. However, since these elements also have diverse electronegativities, recent works show that atoms can have a range of atomic charges. In this work, using density functional theory (DFT), we investigate electronic charge distribution in face centered cubic (FCC) Ni-based alloys and find significant charge-density distortion in HEAs. Specifically, Cr atoms have large charge density distortion that results in a wide range of bond lengths, atomic charges, and electronic density of states in Cr-containing …


Expandable Tissue-Engineered Living Surgical Pulmonary Heart Valve For Pediatric Patients, Jacob M. Lautenschlager Aug 2024

Expandable Tissue-Engineered Living Surgical Pulmonary Heart Valve For Pediatric Patients, Jacob M. Lautenschlager

All Theses

Cardiovascular disease is the most common cause of mortality in developed countries, with 607.74 million cases globally in 2020.1,2 Advances in medicine have changed the current demographic suffering from heart valve disease into an aging population suffering from degenerative heart valve disease, creating a growing population treated by surgical or transcatheter intervention.3-6 Current treatments of valvular heart disease are therefore directed toward valve replacements for the adult population, leaving a treatment gap for pediatric patients suffering from heart valve disease.7-10

Congenital heart defects are defined as structural abnormalities of the heart or intrathoracic great vessels and are …


Assessing Even Flat-Fan Nozzles For Spot Spray Herbicide Applications, Thiago H. Vitti Aug 2024

Assessing Even Flat-Fan Nozzles For Spot Spray Herbicide Applications, Thiago H. Vitti

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

Herbicide efficiency in row-crop agriculture can be improved using precision technologies for controlling weeds and minimize agronomic, economic, and environmental impacts. Site-specific weed management technologies, such as spot-sprayers, allow herbicides to be sprayed only where weeds are present in the field. Understanding application parameters and their influence on weed control for site-specific spot-spray applications is essential. This research involved laboratory and greenhouse studies to investigate the coverage and coefficient of variation (CV) of even flat-fan spray nozzles under different spot-spray application scenarios, as well as the effect of weed size and application method on the control of various weed species …


Experimental And Computational Investigation Of Green Laser Propagation Through Turbulent Medium In A Water Tank, Richard Owusu Adansi Aug 2024

Experimental And Computational Investigation Of Green Laser Propagation Through Turbulent Medium In A Water Tank, Richard Owusu Adansi

Open Access Theses & Dissertations

Turbulence medium poses significant challenges to the propagation of laser beams, impacting applications such as free-space optical communication, remote sensing, and laser weapons systems. Therefore, comprehending and mitigating turbulence effects are vital for enhancing the performance of these systems. Analysis of a strong turbulence impact on electromagnetic wave propagation requires extensive knowledge of the Earth's atmospheric and Oceanic phenomena and Maxwell's electromagnetic theory of light as a propagating wave of electric and magnetic fields. Optical systems' propagation often encounters Strong Turbulence, causing interference and diffraction. Nonetheless, light propagation through randomly fluctuating media has been an exciting and active area of …


Home Care Work Of Caregivers For Mexican American Adults With Dementia: A Culturally Informed Model Integrating Work System Analyses And Health Disparities Research Framework, Laura Cristina Tovar Felix Aug 2024

Home Care Work Of Caregivers For Mexican American Adults With Dementia: A Culturally Informed Model Integrating Work System Analyses And Health Disparities Research Framework, Laura Cristina Tovar Felix

Open Access Theses & Dissertations

Dementia is an umbrella term for different diseases such as Alzheimer's, vascular dementia, Lewy body, frontotemporal, and mixed dementias. Dementia is caused by a variety of diseases that cause damage to brain cells interfering with the ability of brain cells to communicate between each other. Dementia is associated with different types of brain cell damage in a specific region of the brain (What Is Dementia?, 2024).Dementia affects 55 million people worldwide, where the most affected population is the low-income and the middle-income countries. (Greenblat, 2023). Every 20 years the number almost double, and by 2039 is estimated to reach 78 …


Synthesis Of Selenium Nanostructures: Rods, Wires, And Fibers By Pulsed Laser Ablation In Liquids, Atikur Rahman Aug 2024

Synthesis Of Selenium Nanostructures: Rods, Wires, And Fibers By Pulsed Laser Ablation In Liquids, Atikur Rahman

Theses and Dissertations

Selenium is a semiconductor that has a bulk energy bandgap of 1.74 eV, is mainly used in sensors, rectifiers, and advanced photovoltaic solar cells. Selenium is very important for the energy applications and was declared as Energy Critical Element (ECE) by the American Physical Society (APS) and the Materials Research Society (MRS). The goal of this dissertation was to control the growth of selenium when being irradiated by a pulsed laser within a liquid environment. The method called “Pulsed Laser Ablation in Liquids” is a green synthesis technique that allows for ligand-free nanoparticles to be created. Laser repetition rates were …


Development Of An Egg-Specific Mass Spectrometry Targeted Method For Processed Food Matrices, Liyun Zhang Aug 2024

Development Of An Egg-Specific Mass Spectrometry Targeted Method For Processed Food Matrices, Liyun Zhang

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Egg is a major food allergen in the United States, causing symptoms from mild reactions to severe anaphylaxis. An egg-free diet remains the only management approach for egg allergy. Therefore, individuals and families living with egg allergies rely heavily on allergen statements on packaged food products for informed food choices. Currently, no labeling regulations exist for unintentionally introduced allergens, posing risks to consumers with egg allergies. Therefore, it is critical to have an accurate and reliable detection method in allergen control and management to determine the concentration of total protein from allergenic food sources. Traditional enzyme-linked immunosorbent assays are routinely …


Development Of Feature Extraction Models To Improve Image Analysis Applications In Cancer, Yu Shi Aug 2024

Development Of Feature Extraction Models To Improve Image Analysis Applications In Cancer, Yu Shi

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Cancer poses a significant global health challenge. With an estimated 20 million new cases diagnosed worldwide in 2022 and 9.7 million fatalities attributable to the disease, the economic burden of cancer is immense. It impacts healthcare systems and imposes substantial costs for its care on patients and their families. Despite advancements in early detection, prevention, and treatment that have reduced overall cancer mortality rates, the growing prevalence of cancer, particularly among younger individuals, remains a pressing issue.

Recent advancements in medical imaging technology have progressed significantly with the help of emerging computer vision and artificial intelligence (AI) technology. Despite these …


Integration Of Matlab And Machine Learning To Accelerate Evaluation Of Biological Activity In Agricultural Soils And Promote Soil Health Improvement Goals, Andrew Stiven Ortiz Balsero Aug 2024

Integration Of Matlab And Machine Learning To Accelerate Evaluation Of Biological Activity In Agricultural Soils And Promote Soil Health Improvement Goals, Andrew Stiven Ortiz Balsero

Department of Agricultural and Biological Systems Engineering: Dissertations, Theses, and Student Research

Traditionally, assessments of soil biological activity have been confined to laboratory settings, creating a disconnect with practical in-field methods. To bridge this gap, cotton fabric degradation has been used to illustrate soil microbial activity under different management practices. While effective, these demonstrations are subjective and labor-intensive.

Researchers have explored using image processing software like ImageJ and Adobe Photoshop to streamline this process. Although these tools accurately quantified fabric degradation under varying soil conditions, the methods remained labor-intensive and complex. Consequently, these methods were still not ideal for on-farm use by agricultural practitioners.

To further address labor and complexity limitations, the …


Mental Models Of Translational Scientists, Rasnia Tabpla, Antonie J. Jetter Aug 2024

Mental Models Of Translational Scientists, Rasnia Tabpla, Antonie J. Jetter

Engineering and Technology Management Faculty Publications and Presentations

Translational science aims to bridge the gap between scientific discoveries and practical application yet faces challenges in achieving high success rates. This study examines the effective engagement of translational scientists, who play a key role in the translation process. It uses Fuzzy Cognitive Maps (FCMs) to analyze the scientists' mental models and identify common concepts related to success factors, such as ability, resources, opportunity, and entrepreneurial competencies. It then compares the mental models of the scientists and finds that mental models exhibit similarities, yet variations exist such as density and connectedness. Scenario analysis with FCM is then used to identify …


Harnessing Nlp And Large Language Models For Pattern Discovery And Information Extraction In Electric Health Reports, Mina Esmail Zadeh Nojoo Kambar Aug 2024

Harnessing Nlp And Large Language Models For Pattern Discovery And Information Extraction In Electric Health Reports, Mina Esmail Zadeh Nojoo Kambar

UNLV Theses, Dissertations, Professional Papers, and Capstones

In this work, we report on a series of natural language processing tools and models to improve the efficiency and accuracy of information discovery from clinical trials and pharmacological studies. Our main contributions are: 1. The development of an open-source platform Tri-AL that • Enables dynamic tracking of clinical trials information over time, • Excels in data visualization and user interaction with a particular emphasis on enhancing the analysis and representation of race and ethnicity data to foster equity in clinical research, and • Includes a predictive model utilizing machine learning to decipher drug mechanisms of action. 2. Heterogeneous Graph …


Rapid Prediction Of Buoyancy-Driven Exchange Flows At The Great Salt Lake: Ml Models And A 1d Shallow Water Approach, Eric M. Larsen Aug 2024

Rapid Prediction Of Buoyancy-Driven Exchange Flows At The Great Salt Lake: Ml Models And A 1d Shallow Water Approach, Eric M. Larsen

All Graduate Theses and Dissertations, Fall 2023 to Present

The Great Salt Lake in Utah, USA, is a hypersaline terminal lake divided in to northern and southern arms by the Union Pacific Railroad causeway since the 1950's. This separation has caused a difference in density and water surface elevation between lake arms. These differences result in a buoyancy-driven exchange flow occurring through an engineered breach in the causeway. Traditionally, modeling the flow through the breach has been done by numerically solving the 1D steady shallow water equations, and using computational fluid dynamics (CFD). The CFD models yield high accuracy results, but require substantial computing resources. This research proposes the …


Sustainable Waste-To-Bioproducts Engineering Center Laboratory Safety Project, Claudine Mock Aug 2024

Sustainable Waste-To-Bioproducts Engineering Center Laboratory Safety Project, Claudine Mock

All Graduate Reports and Creative Projects, Fall 2023 to Present

Laboratory accidents are common in teaching and research labs; these accidents can be injurious or even fatal. The consequences of each type of laboratory accident are different based on the activities performed and the hazardous materials used in each facility. However, the most common issue related to laboratory accidents is the lack of proper safety measures (e.g., poor handling of hazardous materials, not reporting incidents immediately, etc.). This project aimed to establish and strengthen best practices and procedures to ensure laboratory safety at the Utah State University Sustainable Waste-to-Bioproducts Engineering Center. To achieve this goal, different practices and measures were …


Ultrashort Pulsed Laser Treatment Is Effective At Sterilizing Metal Surfaces For Planetary Protection, Kaleb Mcquillan Aug 2024

Ultrashort Pulsed Laser Treatment Is Effective At Sterilizing Metal Surfaces For Planetary Protection, Kaleb Mcquillan

Department of Electrical and Computer Engineering: Dissertations, Theses, and Student Research

To prevent forward contamination from microbes aboard spacecraft intended for exploration of solar system bodies there is a need for effective sterilization methods. However, current techniques are both time-consuming and expensive. For example, dry heat sterilization requires removal from the assembly site and several days of treatment. Furthermore, some components such as optics and electronics are not compatible with current sterilization techniques. In this thesis, a novel femtosecond laser surface processing technique for the rapid sterilization of spacecraft hardware is reported. Femtosecond lasers produce extremely high photon fluxes (1029 photons/s*cm2, ~0.03 J/cm2) in extremely short …


Fabrication And Characterization Of Lignin–Pva Hydrogels With Tunable Network Structures, Keturah Bethel Aug 2024

Fabrication And Characterization Of Lignin–Pva Hydrogels With Tunable Network Structures, Keturah Bethel

All Dissertations

The ability to directly tune the crosslinked network structure of hydrogels is crucial for their functional applications in various fields, such as water filtration, protein separation, and tissue engineering. By controlling the crosslink density of the hydrogel, one can directly alter the mesh size – i.e., the end-to-end distance between crosslink junctions – and, subsequently, directly alter the hydrogel performance. This work discusses the fabrication and characterization of soft composites containing the biopolymer, lignin, are discussed. Precisely, physically-crosslinked composite lignin–Poly(vinyl alcohol) (PVA) hydrogels were fabricated via the freeze-thaw (F/T) pathway, whereby solutions containing specified amounts of PVA and lignin were …


Bioaffinity Analysis Of Aptamer-Target Interactions, Pooja Karunanithi Aug 2024

Bioaffinity Analysis Of Aptamer-Target Interactions, Pooja Karunanithi

Honors Theses

This study explores the bioaffinity of aptamer-target interactions through a comprehensive analysis. Aptamers, oligonucleotides that can bind to target molecules, have emerged as powerful tools in various fields, including diagnostics and therapeutics. The primary objective of this research was to assess the binding affinity and specificity of selected aptamers to their respective targets using a combination of experimental techniques and computational models. The binding affinity of 10 different complexes were measured through surface plasmon resonance (SPR) followed by molecular simulations. The results showed that the 6th complex had the best binding affinity. The data suggest that these aptamers could be …


Engineered Nucleic-Acid Binding Intrinsically Disordered Proteins For Biomedical Applications, Telmo Diez Perez Aug 2024

Engineered Nucleic-Acid Binding Intrinsically Disordered Proteins For Biomedical Applications, Telmo Diez Perez

Biomedical Engineering ETDs

This dissertation explores the use of intrinsically disorder proteins (IDPs) in biomedical applications related to the detection and biosensing of nucleic-acid species. We engineer several low critical solution temperature (LCST) nucleic-acid binding elastin-like polypeptides (ELPs) as model IDPs and study their potential in biomedical application via interactions with short single-stranded (ss) DNA, tRNA and viral RNAs. First, we engineer a simple polycationic ELP capable of recruiting DNA on demand in a DNA-protein-rich condensate via LLPS. Moreover, we develop a modified Flory-Huggins theory to quantify the partitioning of DNA and protein upon coacervate formation with and without salts. We then design …