Digital Commons Network^™

Evaluation Of Cell Lysis Techniques For Direct Amplification Of Sexual Assault Samples, Sarah Schellhammer

Theses and Dissertations

Sexual assault is one of the most common crimes committed today with a delay in sample processing, resulting in the “rape kit backlog”. The traditional method to extract DNA from these samples containing both male and female DNA is a differential extraction; taking hours to process. This study examined a variety of different cell lysis techniques to develop a method which can consistently generate high-quality profiles at a fast rate and with low volumes when compared to the currently used method in our laboratory.

Six lysis methods, in addition to the currently used forensicGEM™ Sperm kit, were performed on …

The Impact Of Latent Print Processing On Firing Pin And Breechface Impressions During Firearm Examination, Brittany B. Harrington

Theses and Dissertations

Latent prints can be a valuable source of forensic evidence when solving a crime. They can verify if a person was at a specific scene, identify unknown individuals to connect them to a scene, and help to corroborate eyewitness accounts. Latent prints, however, are not always visible until they have undergone enhancement or visualization techniques. When fired cartridge cases are suspected of containing latent prints, they are brought in for latent print processing before any firearm analysis is performed. As a result, these cartridges are often coated in various residues or dyes when they arrive for firearm examination. In response, …

Creation And Optimization Of An Optical Trapping Microfluidic Device For The Separation Of Mock Forensic Sexual Assault Samples, Mackenzie Lally

Theses and Dissertations

Cell mixtures are often seen in forensic samples and commonly involve sexual assault cases where mixtures of sperm cells and vaginal epithelial cells are frequently encountered. This produces challenges in downstream analysis in the form of STR mixture profiles. The only method currently in use in crime laboratories for front-end sperm and epithelial cell separation is differential extraction. This method often results in STR mixture profiles due to carryover into both the male and female fractions and suffers from a wide range of efficiency depending on the laboratory or individual processing the sample. Optical trapping offers an alternative method for …

The Efficacy Of Recovering Latent Fingerprints From Fired Cartridge Cases By Way Of Cyanoacrylate Fuming Combined With Basic Yellow Dye Staining, Lily Mantz

Theses and Dissertations

This experiment attempted to tackle the long-standing struggle to consistently recover latent fingerprints from fired cartridges. With an emphasis on realistic handling of high volume of samples combined with Cyanoacrylate fuming followed by Basic Yellow dye staining, a total of 740 cartridges were examined. These included fired and unfired brass and nickel case 9mm Luger and 40 S&W cartridges. The cartridges were divided into five different groups; each were treated differently prior to cyanoacrylate fuming and dye staining, which was conducted in the same manner for the groups. The groups included the positive and negative controls, loaded, cycled, and fired. …

Qualitative And Quantitative Characterization Of Epithelial Cell Mixtures Using Hormone Antibody Probes And Flow Cytometry, Luke Baldridge

Theses and Dissertations

“Touch” DNA is evidence that consists of epidermal cells deposited by handling objects and it is becoming more common in evidence samples processed in crime labs. Because “touch” DNA evidence samples may be low-template DNA and are often mixtures, there is a need to both nondestructively estimate the amount of DNA present prior to DNA purification and to identify and characterize mixtures prior to DNA typing. The purpose of this study was to test the use of FITC-labeled anti-testosterone antibodies as a potential tool to estimate the number of contributors in two-, three-, and four-person mixtures of epidermal skin cells, …

Powerplex® Fusion 6c System Versus Powerplex® Fusion 5c: A Comparison Of Performance Metrics, Caitlin M. Mccaughan

Theses and Dissertations

Following the FBI mandated expansion of the CODIS core loci from 13 to 20, several manufacturers developed short tandem repeat (STR) typing kits in response to the new criteria. One such manufacturer was the Promega Corporation, which released the PowerPlex® Fusion 5C megaplex STR typing kit (Fusion 5C) in 2012. Currently, the Virginia Department of Forensic Science (VDFS) utilizes this amplification kit for both casework and database applications. In 2015, Promega released the PowerPlex® Fusion 6C STR typing kit (Fusion 6C), which contains three additional loci beyond those included in PowerPlex® Fusion 5C, and a sixth color channel. The power …

Evaluation Of Dna Extraction Efficiencies Of Promega’S Dna Iq™ Methods And Casework Extraction Kit For Low Template Samples, Emily M. Anderson

Theses and Dissertations

Biological evidence from crime scene samples frequently contain low levels of DNA, such as the most predominant form of evidence, which is DNA deposited by handling objects or “touch evidence”. To maximize the DNA yield recovered from theses challenging samples, forensic laboratories must optimize the extraction methods utilized to isolate and purify DNA for downstream short tandem repeat (STR) amplifications. Currently, the Virginia Department of Forensic Science (VADFS) uses a DNA IQ™ System (DNA IQ) extraction method for isolation of DNA from most forensic samples. This extraction procedure, which combines DNA IQ™ lysis buffer and Dithiothreitol (DTT), has been validated …

Quantitative Pcr And Sanger Sequencing Of Mitochondrial Dna Recovered From Waterlogged Bone, Kailey Babcock

Theses and Dissertations

In forensic contexts, samples containing heavily fragmented DNA are commonly encountered. Compromised biological samples are especially prevalent in instances where human remains have been submerged in an aqueous environment for extended periods of time. Nuclear DNA is particularly vulnerable to the prolonged exposure to heat, moisture, and bacterial degradation that are prevalent in aquatic settings. Paired with the difficulty of recovering DNA from skeletal remains, which are often the only remaining component after the soft tissues have been stripped away, mitochondrial DNA (mtDNA) analysis serves as an invaluable alternative. In this multifaceted study, mtDNA analysis was performed on waterlogged bone …

Development Of An Analytical Method And Sample Preparation Technique For The Analysis Of Sulfur-Containing Fentanyl Analogs By Uplcmsms, And The Application To Forensic Science, Amber D. Budmark

Theses and Dissertations

In February 2018, the US DEA Agency released a statement of the emergency scheduling (Schedule 1) of all fentanyl analogs not already regulated by the CSA due to an alarming increase in overdose deaths linked to synthetic opioids. Fentanyl analogs are pharmacologically similar to fentanyl, but often more potent. This increased potency can create problems with proper dosing of fentanyl analogs leading to untoward effects including an increase in overdoses and deaths. Since 2018, there has been a 38.4% increase in illicitly manufactured fentanyl overdose deaths leading the CDC to make available the FAS Kit and Emergent Panels containing previously …

Detection Of 2,4,6-Trinitrotoluene Using A Colorimetric Gold Nanoparticle Air Cassette Filter, Andrea I. Ferrer Vega

Theses and Dissertations

Trinitrotoluene (TNT) is an explosive commonly used during military and terrorist activities. Current methods to identify this compound require sampling, transport and analysis at a forensic lab using analytical instrumentation. However, on-site detection is needed to assist efforts to prevent detonation. Gold nanoparticles have been used as sensors throughout the years due to their versatility and surface enhanced Raman scattering properties in the presence of an analyte and low limits of detection. By taking advantage of the Meisenheimer complex that TNT forms in the presence of amines, it is possible to determine its presence at picogram levels. Subsequently, adhering amine …

Comparison Of Semi-Automated And Manual Differential Separation Methods For Mock Sexual Assault Samples, Stephanie Rink

Theses and Dissertations

In the event of a sexual assault, separation of suspect from victim DNA is possible through differential extraction if the evidentiary mixture consists of female epithelial cells and male spermatozoa. The basis of differential extraction is the differing properties of epithelial and sperm cell membranes, specifically the comparative sturdiness of the proteins making up the sperm head containing the male DNA. Effective retrieval and separation of male and female DNA fractions is important in generating high-quality STR profiles that can be utilized in identifying suspects in a sexual assault case. Differential extraction has been conventionally performed using Proteinase K (PK) …

Evaluation Of Five Methods To Develop Latent Prints On Thermal Paper, Jenna Pregent

Theses and Dissertations

Forensic latent fingerprint laboratories determine the proper techniques for fingerprint visualization based on the substrates upon which they are deposited. Typical forensic analysis of thermal paper evidence involves the application of ninhydrin and/or 1,2-indanedione dissolved in a polar solvent. However, polar solvents create an undesirable reaction with the thermal paper’s internal properties and often lead to discoloration of the evidence. When this occurs, not only are the fingerprints less likely to be visible due to the loss of contrast, but the evidentiary print on the receipt may be lost entirely. This research sought to compare five development methods to determine …

Are The Tickets For Everyone? Heterogeneity Of Economic Rewards For Associate’S Degree Completion, Kathleen E. Lee

Theses and Dissertations

Associate’s degree completion has been billed as the quickest way to upskill the workforce and a ticket to the middle class (Carnevale et al., 2018; Gittell et al., 2017). Yet, over 35 million Americans have left college without a degree (Wheatle et al., 2017). Black and Hispanic students are more likely than White and Asian students to leave college before completing a degree (Shapiro et al., 2017). This study examined if economic benefits differ between those whose highest level of educational attainment is “some college, no degree (SCND)” and an associate’s degree, specifically by analyzing heterogeneity and interaction effects between …

Medical Expenditures And Health Care Utilization: A Comparison Among U.S. Adult Tobacco Consumers (I.E. Never Tobacco Users, Cigarette Smokers And Smokeless Tobacco Users), Raheema S. Muhammad

Theses and Dissertations

Introduction

Cigarette smoking poses a great economic cost on the U.S. health care system by incurring high health care expenditure and health care utilization in the adult population. Although there is a sufficient amount of information on the health care cost associated with cigarette smoking there is a gap in how other forms of tobacco use may impact healthcare expenditures and utilization in comparison to cigarette smoking. The main objectives of this study were: 1) to estimate and compare health care expenditure and health care utilization across different tobacco use groups using nationally representative data 2) to estimate and compare …

The Role Of Insurance Coverage In Outpatient Substance Use Disorder Treatment Referral, Utilization, And Outcomes, Huyen Pham

Theses and Dissertations

Opioid-related overdoses increased dramatically in recent years. Medicaid plays a predominant role in paying for opioid use disorder (OUD) treatment. However, there is a critical gap in understanding the role of Medicaid coverage in referrals to treatment, treatment utilization, and treatment retention. The three studies used observational and quasi-experimental (i.e., natural experiment) designs leveraging state and year variation in Medicaid expansion to characterize the role of Medicaid coverage in OUD treatment. We found that individuals with OUD with Medicaid insurance were more likely to use outpatient treatment, whereas those who were uninsured were more likely to use self-help groups only. …

A Computational Model Relating Tissue Oxygen Consumption To Oxygen Delivery In A Krogh Cylinder Model Of Skeletal Muscle, Raghad A. Alqahtani

Theses and Dissertations

Oxygen transport from a capillary to skeletal muscle tissue is a complex process that involves convective and diffusive mechanisms to deliver adequate oxygen to meet tissue metabolic activities. Typically, oxygen uptake in tissue is set by oxygen demand, which is set by metabolic activity. The relationship between the oxygen consumption (VO₂) of an isolated perfused tissue and the rate of delivery of oxygen (QO₂) to the tissue has been a subject of interest to many investigators over the past century. Experiments have shown that there is a critical value of QO₂ below which tissue VO …

Evaluating The Effects Of Electronic Nicotine Delivery Systems On Smoking Reduction, Negative Mood, And Stress Among Smokers With Mental Illness, Cosima Hoetger

Theses and Dissertations

Introduction: Smokers with mental illness (MI) are disproportionately affected by negative health outcomes. Electronic nicotine delivery systems (ENDS) may represent a harm reduction tool for those who reduce and/or replace their cigarettes with ENDS. Little previous research has examined how smokers with MI respond to ENDS. This analysis aimed to address this research gap using secondary data from a randomized controlled trial of ENDS varying in nicotine delivery among smokers with and without current MI. The aims were to test 1) the effects of MI status, condition, and time on changes in smoking behavior and negative mood and stress measures, …

Estimating Affective States In Virtual Reality Environments Using The Electroencephalogram, Meghan R. Kumar

Theses and Dissertations

Recent interest in high-performance virtual reality (VR) headsets has motivated research efforts to increase the user's sense of immersion via feedback of physiological measures. This work presents the use of electroencephalographic (EEG) measurements during observation of immersive VR videos to estimate the user's affective state. The EEG of 30 participants were recorded as each passively viewed a series of one minute immersive VR video clips and subjectively rated their level of valence, arousal, dominance, and liking. Correlates between EEG spectral bands and the subjective ratings were analyzed to identify statistically significant frequencies and electrode locations across participants. Model feasibility and …

A Deep Learning U-Net For Detecting And Segmenting Liver Tumors, Vidhya Cardozo

Theses and Dissertations

Visualization of liver tumors on simulation CT scans is challenging even with contrast-enhancement, due to the sensitivity of the contrast enhancement to the timing of the CT acquisition. Image registration to magnetic resonance imaging (MRI) can be helpful for delineation, but differences in patient position, liver shape and volume, and the lack of anatomical landmarks between the two image sets makes the task difficult. This study develops a U-Net based neural network for automated liver and tumor segmentation for purposes of radiotherapy treatment planning. Non-contrast simulation based abdominal CT axial scans of 52 patients with primary liver tumors were utilized. …

Starting Earnings Of Bachelor’S And Advanced Degree Graduates By Field Of Study: Using Multi-Level Modeling To Estimate The Effects And Early Labor Market Consequences Of Vertical And Horizontal Dimensions Of Higher Education, Qiao Liang

Theses and Dissertations

This study was conducted to better understand early labor market outcomes of higher education and the importance of the vertical and horizontal dimensions of higher education. Using College Scorecard’s institution and field of study levels data and a multilevel modeling approach, it estimated and ranked typical starting earnings associated with a large spectrum of bachelor’s and advanced degree programs, and discussed patterns, variations, and irregularities observed in the ranked earnings. This study also calculated advanced degree effects on the typical starting earnings associated with bachelor’s and advanced degree programs, and set precedence to systematically compare the effects of major, department, …

Biomass-Derived Electrode Materials And Sustainable Processes For Supercapacitors, Katelyn M. Shell

Theses and Dissertations

Biomass is one of the most abundant natural resources and has been used as a source of energy for thousands of years. Biomass as a precursor for energy storage materials is still relatively novel and faces several obstacles before becoming commonly used in today’s electrical devices. Currently, energy storage devices, such as batteries, capacitors, and supercapacitors, utilize petroleum-derived graphitic carbons for anodes, generating a need for more sustainable materials. Biomass, as a carbon-rich source for electrode materials, presents a viable and economically feasible alternative due to the prevalent lignocellulosic compounds: lignin, cellulose, and hemicellulose. Preliminary studies on the solid residues …

Interclass Gpcr Heteromerization Affects Localization And Trafficking, Rudy Toneatti

Theses and Dissertations

Class A serotonin (5-hydroxytryptamine) 2A (5-HT_2AR) and class C metabotropic glutamate 2 receptors (mGluR2) are seven transmembrane receptors (7TMRs or G protein-coupled receptors – GPCRs) involved in multiple neuropsychiatric disorders including schizophrenia. Previous findings from our laboratory reported that 5-HT_2AR and mGluR2 are dysregulated in the prefrontal cortex of patients suffering from this psychiatric condition, although 5-HT_2AR’s expression was recovered in antipsychotic-medicated patients. Genome-wide association studies on schizophrenia reported that endosomal trafficking that regulates cell surface abundance of another 7TMR implicated in this disease (dopamine D2 receptor) can be altered. Ligand-activated receptors, including the …

Inquiries In Intelligent Information Systems: New Trajectories And Paradigms, Samaa Elnagar

Theses and Dissertations

Rapid Digital transformation drives organizations to continually revitalize their business models so organizations can excel in such aggressive global competition. Intelligent Information Systems (IIS) have enabled organizations to achieve many strategic and market leverages. Despite the increasing intelligence competencies offered by IIS, they are still limited in many cognitive functions. Elevating the cognitive competencies offered by IIS would impact the organizational strategic positions.

With the advent of Deep Learning (DL), IoT, and Edge Computing, IISs has witnessed a leap in their intelligence competencies. DL has been applied to many business areas and many industries such as real estate and manufacturing. …

Effect Of Kcc2-Enhancing Prodrug Clp290 On Tat ± Morphine Treated Female Mice At The Behavioral And Molecular Levels, Michael Marone

Theses and Dissertations

HIV-1 infection is highly comorbid with opioid use disorder. Prescription and illicit use of opioids are particularly risky for HIV-1 infected individuals due to potential synergistic neurotoxic effects mediated by viral proteins and opioids. Additionally, opiate drug abuse has been shown to exacerbate neuropathogenesis of HIV-1⁺ individuals. Development of combination antiretroviral therapies (cART) has drastically improved the life expectancy of these patients. Unfortunately, although the severity of neurological and neurocognitive complications has declined, the incidence of HIV-associated neurocognitive disorders (HAND) remains 30-50% in the post-cART era and is worsened by opioid use disorder. HIV-1 proteins, inflammatory mediators, and excitotoxins …

The Importance Of Connection: Contributions Of Relationships With Fathers And Connections To School To Delinquent Behavior And Positive Youth Development, Colleen S. Walsh

Theses and Dissertations

Risk-taking and boundary pushing are hallmarks of adolescent behavior, making the identification of promotive and protective factors related to both delinquent behavior and positive adolescent functioning essential. Previous studies have provided compelling evidence that suggests aspects of familial relationships may successfully attenuate delinquent behavior and support positive functioning outcomes. Despite these findings, the father-adolescent relationship is understudied in association with these outcomes. The current study examined relations between adolescents’ perception of school connectedness and father-adolescent relationship quality and delinquent behavior and positive adolescent functioning outcomes. This study used data collected when youth were nine and fifteen years old from the …

Comparing The Sensitivity And Specificity Of Cbct And Mri In Detecting Osteoarthritis Of The Tmj: A Systematic Review, Gabriel R. Saavedra

Theses and Dissertations

The aim of this systematic review was to compare the sensitivity and specificity of cone-beam computed tomography (CBCT) and magnetic resonance imaging (MRI) in detecting osteoarthritis (OA) of the temporomandibular joint (TMJ). This was done by using computed tomography (CT) and the research diagnostic criteria for temporomandibular disorders (RDC/TMD) as reference methods and using CBCT and MRI as index methods. A specific search strategy was developed and applied to these electronic databases: PubMed, Embase, DOSS, and Cochrane. The search results returned 802 articles, which were then narrowed down using the inclusion/exclusion criteria, to four final articles that were included in …

Cardiac Arrest And Global Ischemia Reperfusion Injury: Role Of Mitochondria And Cannabinoid Receptor 2 Signaling., Jennifer L. Bradley

Theses and Dissertations

We explored the effects of cardiac arrest on mitochondria populations and heart whole tissue lysate proteomics utilizing the Weil Institute’s in vivo rat model of cardiac arrest and cardiopulmonary resuscitation. We have discovered that brain mitochondria are more sensitive to global ischemia compared to heart mitochondria. Additionally, complex I is the most sensitive electron transport chain complex to ischemic injury and is a major control point of the rate of oxidative phosphorylation following cardiac arrest and cardiopulmonary resuscitation. Preservation of brain mitochondrial activity and function during cardiac arrest may enhance outcomes and recovery.

A recent article focusing on acute myocardial …

Ck2 Phosphorylation Of Human Papillomavirus 16 E2 On Serine 23 Promotes Interaction With Topbp1 And Is Critical For E2 Plasmid Retention Function, Apurva Tadimari Prabhakar

Theses and Dissertations

Human papillomaviruses (HPVs) are the causative agents in most cervical cancers and have been implicated in a rising number of oropharyngeal cancers. HPV positive oropharyngeal cancers have increased significantly over the last two decades with no specific anti-viral therapeutic options for the treatment of HPV diseases. During its lifecycle, HPV16 encoded E2 protein interacts with host cellular factors to regulate viral transcription, replication and genome segregation/retention. Our understanding of the cellular partner proteins that E2 uses to mediate its functions remains incomplete.

Previously, an interaction between E2 and the host protein TopBP1 was identified. In earlier studies, it was also …

Mathematical Modeling Of Lung Inflammation: Macrophage Polarization And Ventilator-Induced Lung Injury With Methods For Predicting Outcome, Sarah B. Minucci

Theses and Dissertations

Lung insults, such as respiratory infections and lung injuries, can damage the pulmonary epithelium, with the most severe cases needing mechanical ventilation for effective breathing and survival. Furthermore, despite the benefits of mechanical ventilators, prolonged or misuse of ventilators may lead to ventilation-associated/ventilation-induced lung injury (VILI). Damaged epithelial cells within the alveoli trigger a local immune response. A key immune cell is the macrophage, which can differentiate into a spectrum of phenotypes ranging from pro- to anti-inflammatory. To gain a greater understanding of the mechanisms of the immune response in the lungs and possible outcomes, we developed several mathematical models …

Computational Analysis And Prediction Of Intrinsic Disorder And Intrinsic Disorder Functions In Proteins, Akila I. Katuwawala

Theses and Dissertations

COMPUTATIONAL ANALYSIS AND PREDICTION OF INTRINSIC DISORDER AND INTRINSIC DISORDER FUNCTIONS IN PROTEINS

By Akila Imesha Katuwawala

A dissertation submitted in partial fulfillment of the requirements for the degree of Engineering, Doctor of Philosophy with a concentration in Computer Science at Virginia Commonwealth University.

Virginia Commonwealth University, 2021

Director: Lukasz Kurgan, Professor, Department of Computer Science

Proteins, as a fundamental class of biomolecules, have been studied from various perspectives over the past two centuries. The traditional notion is that proteins require fixed and stable three-dimensional structures to carry out biological functions. However, there is mounting evidence regarding a “special” class …