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Theses/Dissertations

2015

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Full-Text Articles in Medicine and Health Sciences

An Athletic Approach To Studying Perception-Action Integration: Does Sport-Specific Training, And The Impact Of Injury, Influence How Individuals Visually Guide Navigation?, Carmen Baker, Jennifer Campos Ph.D, Michael E. Cinelli Ph.D. Jan 2015

An Athletic Approach To Studying Perception-Action Integration: Does Sport-Specific Training, And The Impact Of Injury, Influence How Individuals Visually Guide Navigation?, Carmen Baker, Jennifer Campos Ph.D, Michael E. Cinelli Ph.D.

Theses and Dissertations (Comprehensive)

The objective of this thesis was to investigate perception-action integration capabilities of individuals during a choice navigation task. This task assessed navigation strategies in open space while individuals avoided colliding with two vertical obstacles that created a body-scaled, horizontal gap, at three varying obstacle distances from the starting location (3m, 5m, 7m). The two studies completed in this thesis employed the same paradigm to assess the hypothesized group differences. Gaze behaviours and kinematics of navigation strategies were compared between: 1) athletes specifically trained in navigating in open space versus non-athletes; and 2) athletes with post-concussion syndrome (PCS) versus non-concussed, specifically …


The Effect Of Training Older Adults In Tai Chi And Compensatory Stepping On Balance Control, Hannah L. Moore Miss Jan 2015

The Effect Of Training Older Adults In Tai Chi And Compensatory Stepping On Balance Control, Hannah L. Moore Miss

Theses and Dissertations (Comprehensive)

Abstract

Introduction: In Canadian society, there is a growing prevalence of older adults and one of the main problems facing this generation today is the risk of falling. Tai Chi (TC) is a martial art that has demonstrated improvements in balance control. It uses a series of fluid movements that engage head, neck and trunk rotation while simultaneously reducing base of support. In addition, it has been demonstrated that training older adults by administering unpredictable perturbations to challenge balance better equips them to react successfully in response to balance perturbations. This study aims to determine the potential balance specific benefits …


Bringing Bpa To Light: Determination Of Bisphenol A In Thermal Receipt Paper Water Samples And Lake Water Samples Using Fluorescence Spectrophotometry, Bailey Chitwood Jan 2015

Bringing Bpa To Light: Determination Of Bisphenol A In Thermal Receipt Paper Water Samples And Lake Water Samples Using Fluorescence Spectrophotometry, Bailey Chitwood

Honors Theses

Bisphenol A (BPA) is a chemical that is commonly used in harder plastic products, in the lining of food cans, and in thermal receipt paper. The usage of BPA in common products has become a concern for humans, especially for infants and young children, because of its effects as an endocrine disrupter. BPA has been linked to diabetes, cardiovascular disease, obesity, and certain developmental disorders. Because of the possible effects of BPA on the development of infants and young children, the use of BPA in baby bottles and other baby products has been outlawed. However, BPA is still used in …


The Significance Of Crispr/Cas9-Directed Cul3 Knockout On Human Colorectal Cancer Cells, Zoe A. Lautz Jan 2015

The Significance Of Crispr/Cas9-Directed Cul3 Knockout On Human Colorectal Cancer Cells, Zoe A. Lautz

Departmental Honors Projects

Cancer, the second leading cause of death in the US, is caused by mutations in select genes that alter cellular function leading to uncontrolled proliferation. Understanding the specific genes that drive cancer can lead to the generation of novel cancer therapies. To identify novel genes that drive cancer in the colon (CRC), lungs, and ovaries in mice, Starr et al. employed a transposon-based insertional mutagenesis system. One of the genes identified, APC, is mutated in 70-80% of human CRCs. CUL3, suspected to be a general driver gene, was discovered in the lung cancer screen. CUL3 was analyzed for its role …


Dementia And Primary-Care Health Measures:Hearing, Gait, And Markers Of Inflammation, Elsa Lindgren Jan 2015

Dementia And Primary-Care Health Measures:Hearing, Gait, And Markers Of Inflammation, Elsa Lindgren

Honors Theses and Capstones

Dementia is a syndrome associated with declining cognitive function that has a variety of types and causes, and is encountered frequently in general medical practice. Researchers are actively exploring possible risk factors for dementia. The St. Louis University Mental Status (SLUMS) exam is a dementia-screening exam used in primary care visits to detect cognitive impairment that may be a sign of dementia. This study compared scores on the SLUMS exam to other measures recorded in a typical primary care visit in 86 patients of age 65 and older to look for correlations between indicators of health, such as physical examination …


Evaluation Of A Modified Food Frequency Questionnaire To Measure Lignans In Australian Men And Women, Ying Qi Winnie Li Jan 2015

Evaluation Of A Modified Food Frequency Questionnaire To Measure Lignans In Australian Men And Women, Ying Qi Winnie Li

Theses: Doctorates and Masters

Phytoestrogens are plant compounds that possess estrogenic and biological properties that have been postulated to protect against chronic diseases. Isoflavonoids and lignans are two main classes of phytoestrogen that have been investigated for their estrogenic efficacy and occurrence in the human diet. Isoflavonoids are found in soy and related products, whereas lignans are found in a wider range of plant-based foods, such as cereals, vegetables, fruits, legumes, nuts and seeds; and in beverages such as tea, coffee and wine. In Western populations with low dietary intake of soy products, compared to the Asian counterparts, lignans could be a more important …


The Acute Effects Of Aerobic Exercise Durations On Arterial Compliance In Recreationally Active Males, Joe Angel Lopez Jan 2015

The Acute Effects Of Aerobic Exercise Durations On Arterial Compliance In Recreationally Active Males, Joe Angel Lopez

Theses and Dissertations - UTB/UTPA

PURPOSE: The purposes of this study were to 1) examine the acute effects of different aerobic exercise durations on large (LAC) and small (SAC) arterial compliance, 2) examine the acute effects of different aerobic exercise durations on central pulse wave velocity (cPWV), peripheral pulse wave velocity (pPWV), Aortic Index (AIx), and 3) to examine the acute effects of aerobic exercise durations on hemodynamics.

METHODS: Eighteen male subjects (age= 23.4±2.0) performed a maximal aerobic stress test (Bruce protocol) in order to estimate VO2max. Participants were required to meet in the lab fasted for at least 8 hours for three …


Altered Intraerythrocytic Development Phenotypes Of Artemisinin-Resistant Plasmodium Falciparum Confer A Fitness Advantage, Amanda Hott Jan 2015

Altered Intraerythrocytic Development Phenotypes Of Artemisinin-Resistant Plasmodium Falciparum Confer A Fitness Advantage, Amanda Hott

USF Tampa Graduate Theses and Dissertations

Resistance to artemisinin combination therapies (ACTs) has emerged in southeast Asia threatening the most widely used treatment against antimalarial-resistant Plasmodium falciparum worldwide. Artemisinin resistance has been associated with a reduced rate of parasite clearance following treatment with an ACT and is attributed to increased survival of ring-stage parasites. Single nucleotide polymorphisms (SNPs) in kelch gene (K13) has been associated with delayed in vivo clearance half-life of artemisinin-resistant P. falciparum and is the only known molecular marker of resistance. The absence of reliable in vitro phenotypes for artemisinin resistance has limited our understanding of the resistance mechanism(s) and fitness costs, therefore …


Assessment Of The Impact Of Attention Deficit Hyperactivity Disorder On Type 1 Diabetes, Kellee Miller Jan 2015

Assessment Of The Impact Of Attention Deficit Hyperactivity Disorder On Type 1 Diabetes, Kellee Miller

USF Tampa Graduate Theses and Dissertations

Individual day-to-day management and effective control of type 1 diabetes (T1D) is ultimately driven by decisions made by the individual. Individuals with attention deficit hyperactivity disorder (ADHD) have a higher tendency to be inattentive, impulsive, and hyperactive. Attention deficits and impulsivity among adolescents and adults with T1D could result in poor diabetes management through infrequent self-monitoring of blood glucose and inadequate insulin dosing – key components of achieving optimal glycemic control.

This study included 7,380 adolescents and young adults, ages 13-25 years, participating in the T1D Exchange clinic registry (median age 17.4 years, duration 7.7 yrs, 50% female, 81% white). …


Ikaros Deficiency Leads To An Imbalance In Effector And Regulatory T Cell Homeostasis In Murine Pancreatic Cancer, Nadine D. Nelson Jan 2015

Ikaros Deficiency Leads To An Imbalance In Effector And Regulatory T Cell Homeostasis In Murine Pancreatic Cancer, Nadine D. Nelson

USF Tampa Graduate Theses and Dissertations

Pancreatic cancer is one of the deadliest cancers with a five-year survival rate of 6%. Pancreatic cancer is resistant to conventional chemotherapy and is usually diagnosed at late stages. Current treatment options have minimal effects in extending patients' lives beyond 10 months. One significant limitation in developing treatments to combat pancreatic cancer is its immunosuppressive microenvironment. Pancreatic cancer secretes factors that activate immunosuppressive cells, such as regulatory T cells (Tregs). These Tregs suppress effector CD4+ and CD8+ T cell anti-tumor immune responses. Therefore, novel treatment options to reduce Treg-mediated immune suppression and increase the numbers and functions of …


Strategies For Preventing Age And Neurodegenerative Disease-Associated Mitochondrial Dysfunction, Vedad Delic Jan 2015

Strategies For Preventing Age And Neurodegenerative Disease-Associated Mitochondrial Dysfunction, Vedad Delic

USF Tampa Graduate Theses and Dissertations

Mitochondrial dysfunction plays a pivotal role in the development of aging phenotypes and aging-associated neurodegenerative disorders, such as Alzheimer’s disease (AD), Parkinson’s disease (PD) and Amyotrophic lateral sclerosis (ALS). Strategies that restore mitochondrial dysfunction may rescue the deficits of central metabolism in these disorders and improve cell survival. For example, we found that modulating the mTOR signaling pathway in a tissue culture model of aging-induced mitochondrial DNA mutation enhanced mitochondrial function as evidenced by increased oxygen consumption. Our previous melatonin studies also led us to hypothesize that caloric restriction and the hormone melatonin would reverse brain mitochondrial dysfunction in animal …


Maternal Stress, Breastmilk Igf-1, And Offspring Growth Among Breastfeeding Mothers-Infant Pairs In The Tampa Bay Area, Lauren Michelle Gottfredson Jan 2015

Maternal Stress, Breastmilk Igf-1, And Offspring Growth Among Breastfeeding Mothers-Infant Pairs In The Tampa Bay Area, Lauren Michelle Gottfredson

USF Tampa Graduate Theses and Dissertations

Background: Maternal stress during utero has been shown to have negative health consequences on the offspring, including low birth weight and increased risk of adult disease. Variation in breastmilk may act as an environmental cue of maternal stress and continue to program the infant during early life. This research aimed to explore the role of breastmilk on developmental programming of the infant. Specifically, to examine how breastmilk may act as a medium for the exposure of stress between the mother and the offspring, and see if variation in insulin like growth factor-1 (IGF-1) a potential mechanism for the relationship.

Methods: …


Mmv Malaria Box Activity Screening In Dormant Plasmodium Falciparum Phenotypes, Sandra Galusic Jan 2015

Mmv Malaria Box Activity Screening In Dormant Plasmodium Falciparum Phenotypes, Sandra Galusic

USF Tampa Graduate Theses and Dissertations

The causative agent of malignant tertian malaria, Plasmodium falciparum undergoes an arrested growth phenotype of its erythrocytic stage when under drug-stress. Recent artemisinin treatment failures seem to be indicative of such induction followed by recrudescence rather than actual therapeutic failure. Likewise, P. vivax hypnozoites are the prototypic dormants and the latent infections for which they are responsible prove most difficult to treat. Dihydroartemisinin, an artemisinin-derivative, can be used to exploit this mechanism by inducing a dormant state in ring-stage P. falciparum parasites and in turn, their recovery may be used as a screening period for compounds that inhibit or foster …


Minocycline Treatment And The Necessity To Develop A Novel Outcome Measure For Children With Angelman Syndrome, Joseph Christopher Grieco Jan 2015

Minocycline Treatment And The Necessity To Develop A Novel Outcome Measure For Children With Angelman Syndrome, Joseph Christopher Grieco

USF Tampa Graduate Theses and Dissertations

Angelman syndrome (AS) is a rare genetic disorder affecting 1/10,000 to 1/20,000 births. This disorder arises through the genetic disruption of the maternal UBE3A allele, which when coupled with epigenetic silencing of the paternal allele UBE3A allele, gives rise to an absence of UBE3A protein in the central nervous system. Clinical manifestations of the syndrome vary in severity and include poor motor function, deficits in language and severe intellectual impairments. Previous research in the Angelman syndrome mouse model revealed abnormalities in dendritic spine density and morphology of hippocampal pyramidal cells. As seen in humans with AS, mice show abnormal behavioral …


Immunological Characterization Of Duffy Binding Protein Of Plasmodium Vivax, Miriam Thankam George Jan 2015

Immunological Characterization Of Duffy Binding Protein Of Plasmodium Vivax, Miriam Thankam George

USF Tampa Graduate Theses and Dissertations

Plasmodium vivax Duffy binding protein (DBP) is an essential ligand for reticulocyte invasion making it a premier asexual blood stage vaccine candidate. However, strain-specific immunity due to DBPII allelic variation may complicate vaccine efficacy, suggesting that an effective DBPII vaccine needs to target immune responses to conserved epitopes that are potential targets of strain-transcending neutralizing immunity. Anti DBPII monoclonal antibodies, which were previously characterized by COS7 cell binding assay as inhibitory and non-inhibitory to DBPII-erythrocyte binding, were mapped to DBPII gene fragment libraries using phage display. Inhibitory mAb 3C9 binds to a conserved conformation-dependent epitope in subdomain 3 while non-inhibitory …


Mediation And Moderation Analysis Of Nutrition, Inflammatory Biomarkers, And Cognition In Older Adults, Elizabeth Handing Jan 2015

Mediation And Moderation Analysis Of Nutrition, Inflammatory Biomarkers, And Cognition In Older Adults, Elizabeth Handing

USF Tampa Graduate Theses and Dissertations

Nutrition can be viewed as a modifiable factor related to maintaining and preserving health in older adults. Previous studies have found that nutritional factors can influence cognitive abilities, however few studies have examined macronutrients and micronutrients as they relate to cognitive functioning. Research has yet to examine the mechanisms related to nutrition, cognition and aging in an older adult population from a holistic and interactive perspective.

This dissertation examined three research questions to better understand the relationship between age, nutrition, cognition, and inflammatory biomarkers. First, is nutrition related to cognition beyond demographic factors? Do individual nutrients serve as mediators? Second, …


An Assessment Of Retractions As A Measure Of Scientific Misconduct And Impact On Public Health Risks, Alison J. Abritis Jan 2015

An Assessment Of Retractions As A Measure Of Scientific Misconduct And Impact On Public Health Risks, Alison J. Abritis

USF Tampa Graduate Theses and Dissertations

Research misconduct has been generally considered a limited issue, occurring in a small percentage of research studies. Studies of the number of article retractions use retraction percentages to perpetuate the idea that research misconduct is not a common event, and use information in the retraction notice to quantify types of research misconduct and types or research error. However, retractions appear to be the wrong variable with which to assess misconduct rates and characteristics. Using final misconduct findings in hard science research from the Office of Research Integrity (ORI) for investigations closed from 1993 through 2013, the number of publications and …


Sigma Receptor Activation Mitigates Toxicity Evoked By The Convergence Of Ischemia, Acidosis And Amyloid-Beta, Adam Alexander Behensky Jan 2015

Sigma Receptor Activation Mitigates Toxicity Evoked By The Convergence Of Ischemia, Acidosis And Amyloid-Beta, Adam Alexander Behensky

USF Tampa Graduate Theses and Dissertations

Stroke is the fifth leading cause of death in the United States and a major cause of long-term disability in industrialized countries. The core region of an ischemic stroke dies within minutes due to activation of necrotic pathways. Outside of this core region is the penumbral zone, where some perfusion is maintained via collateral arteries. Delayed cell death occurs in this area due to the triggering of apoptotic mechanisms, which expands the ischemic injury over time. The cellular and molecular events that produce the expansion of the ischemic core continue to be poorly understood. The increases in the amyloid precursor …


Gait Intervention For Improvements In Human Top Speed Running, Michelle Buechner Jan 2015

Gait Intervention For Improvements In Human Top Speed Running, Michelle Buechner

Graduate Student Theses, Dissertations, & Professional Papers

Between individuals faster sprinting speeds are achieved by applying greater stance average forces against the running surface. Recent evidence further indicates that elite level performers also strike the ground with leg kinematics that differ from those of non-elites and that these leg movements act to enhance the force transients occurring in the milliseconds following foot-ground impact. I investigated whether sprint performance could be enhanced through a short term gait intervention, consisting of 3 laboratory training sessions wherein subjects (n = 6) completed 5 high-speed runs on an instrumented force treadmill at 90% of their measured top sprint. The subjects received …


Characterization Of A Novel Protease In Staphylococcus Aureus, Adam L. Johnson Jan 2015

Characterization Of A Novel Protease In Staphylococcus Aureus, Adam L. Johnson

Theses and Dissertations

A newly discovered cysteine protease, Prp, has been shown to perform an essential, site-specific cleavage of ribosomal protein L27 in Staphylococcus aureus. In Firmicutes and related bacteria, ribosomal protein L27 is encoded with a conserved N-terminal extension that must be removed to expose residues critical for ribosome function. Uncleavable and pre-cleaved variants were unable to complement an L27 deletion in S. aureus, indicating that this N-terminal processing event is essential and likely plays an important regulatory role. The gene encoding the responsible protease (prp) has been shown to be essential, and is found in all organisms …


Immunotherapy Of Cancer: Reprogramming Tumor/Immune Cellular Crosstalk To Improve Anti-Tumor Efficacy, Kyle K. Payne Jan 2015

Immunotherapy Of Cancer: Reprogramming Tumor/Immune Cellular Crosstalk To Improve Anti-Tumor Efficacy, Kyle K. Payne

Theses and Dissertations

Immunotherapy of cancer has been shown to be promising in prolonging patient survival. However, complete elimination of cancer and life-long relapse-free survival remain to be major challenge for anti-cancer therapeutics. We have previously reported that ex vivo reprogramming of tumor-sensitized immune cells by bryostatin 1/ionomycin (B/I) and the gamma-chain (γ-c) cytokines IL-2, IL-7, and IL-15 resulted in the generation of memory T cells as well as CD25+ NKT cells and CD25+ NK cells. Adoptive cellular therapy (ACT) utilizing these reprogrammed immune cells protected FVBN202 mice from tumor challenge, and overcame the suppressive functions of myeloid-derived suppressor cells (MDSCs). We then …


Dysregulation Of Micrornas In Blood As Biomarkers For Diagnosing Prostate Cancer, Rhonda W. Daniel Jan 2015

Dysregulation Of Micrornas In Blood As Biomarkers For Diagnosing Prostate Cancer, Rhonda W. Daniel

Theses and Dissertations

Prostate cancer is the most common noncutaneous cancer among men, yet current diagnostic methods are insufficient and more reliable diagnostic markers need to be developed. The answer that can bridge this gap and enable more efficient diagnoses may lie in microRNAs. These small, single stranded RNA molecules impact protein expression at the translational level and regulate important cellular pathways. Dysregulation of these small RNA molecules can have tumorigenic effects on cells and lead to many types of cancers.

Currently the Prostate-Stimulating Antigen (PSA) is used as a diagnostic marker for prostate cancer. However, many factors can elevate PSA levels such …


Characterizarion Of The Regulation And Function Of Neisseria Gonorrhoeae Tonb-Dependent Transporters: Tdfg, Tdfh And Tdfj, Sophonie Jean Jan 2015

Characterizarion Of The Regulation And Function Of Neisseria Gonorrhoeae Tonb-Dependent Transporters: Tdfg, Tdfh And Tdfj, Sophonie Jean

Theses and Dissertations

The obligate human pathogen Neisseria gonorrhoeae successfully overcomes host strategies to limit essential nutrients, termed “nutritional immunity” by expression of TonB-dependent transporters (TdTs): outer membrane receptors that facilitate nutrient transport in an energy-dependent manner. N. gonorrhoeae encodes eight TdTs, five of which facilitate utilization of iron or iron-chelates from host derived proteins including transferrin, lactoferrin and hemoglobin, in addition to siderophores from neighboring bacteria. The transferrin utilization system was previously shown to be critical for establishing infection in human males; demonstrating the possible contributions of TdTs to gonococcal pathogenesis. As such, studies describing the biological function and contribution to pathogenesis …


Xlf-Dependent Nonhomologous End Joining Of Complex Dna Double-Strand Breaks With Proximal Thymine Glycol And Screening For Xrcc4-Xlf Interaction Inhibitors, Mohammed Al Mohaini Jan 2015

Xlf-Dependent Nonhomologous End Joining Of Complex Dna Double-Strand Breaks With Proximal Thymine Glycol And Screening For Xrcc4-Xlf Interaction Inhibitors, Mohammed Al Mohaini

Theses and Dissertations

DNA double-strand breaks induced by ionizing radiation are often accompanied by ancillary oxidative base damage that may prevent or delay their repair. In order to better define the features that make some DSBs repair-resistant, XLF-dependent nonhomologous end joining of blunt-ended DSB substrates having the oxidatively modified nonplanar base thymine glycol (Tg) at the first (Tg1) , second (Tg2), third (Tg3) or fifth (Tg5) positions from one 3’ terminus was examined in human whole-cell extracts. Tg at the third position had little effect on end-joining even when present on both ends of the break. However, Tg as the terminal or penultimate …


The Characterization Of A Putative Virulence Factor Expressed By Sneathia Amnii, Amy Sanford Jan 2015

The Characterization Of A Putative Virulence Factor Expressed By Sneathia Amnii, Amy Sanford

Theses and Dissertations

Preterm birth, defined at birth before 37 weeks gestation, affects millions of newborns worldwide every year. Preterm birth is a leading cause of infant morbidity and mortality. One major cause of preterm birth is preterm premature rupture of membranes (PPROM), which can be triggered by bacterial infection and inflammation. A bacterial species that has been implicated in preterm birth and other obstetric complications is Sneathia amnii. The goals of this study were to observe cytopathogenic effects caused by S. amnii strain Sn35 and identify putative virulence factors causing those effects. Sn35 was able to adhere to, invade, and damage/kill …


Interaction Between Atm Kinase And P53 In Determining Glioma Radiosensitivity, Syed F. Ahmad Jan 2015

Interaction Between Atm Kinase And P53 In Determining Glioma Radiosensitivity, Syed F. Ahmad

Theses and Dissertations

Glioblastoma multiforme (GBM) is the most common primary brain tumor. Studies have shown that targeting the DNA damage response can sensitize cancer cells to DNA damaging agents. Ataxia telangiectasia mutated (ATM) is involved in signaling DNA double strand breaks. Our group has previously shown that ATM inhibitors (ATMi) sensitize GBM cells and tumors to ionizing radiation. This effect is greater when the tumor suppressor p53 is mutated.

The goals of this work include validation of a new ATM inhibitor, AZ32, and elucidation of how ATMi and p53 status interact to promote cell death after radiation. We propose that ATMi and …


Effects Of Hiv-1 Tat On The Enteric Nervous, Joy Ngwainmbi Jan 2015

Effects Of Hiv-1 Tat On The Enteric Nervous, Joy Ngwainmbi

Theses and Dissertations

More than 1.2 million people are estimated to be currently living with the human immunodeficiency virus (HIV) in the United States of America. The gastrointestinal (GI) tract is both a major target and an important component of HIV pathogenesis. The GI processes that are dysregulated during HIV infection are controlled by the enteric nervous system (ENS). Indeed, both clinical and experimental studies have implicated the ENS in HIV and simian immunodeficiency virus (SIV) pathogenesis. In addition to direct viral effects, the HIV virus also indirectly affects the GI tract via cellular and/or viral toxins released by infected cells. Trans-activator of …


Elaboration And Design Of Α7 Nachr Negative Allosteric Modulators, Osama I. Alwassil Jan 2015

Elaboration And Design Of Α7 Nachr Negative Allosteric Modulators, Osama I. Alwassil

Theses and Dissertations

α7 Neuronal nicotinic acetylcholine receptors are one of two major classes of receptors responsible for cholinergic neurotransmission in the central nervous system. The existence of α7 neuronal nAChRs in different regions of the nervous system suggests their involvement in certain essential physiological functions as well as in disorders such as Alzheimer’s disease (AD), drug dependence, and depression. This project was aimed toward the discovery and development of small–molecule arylguanidines that modulate α7 nAChR function with improved subtype-selectivity through an allosteric approach. Identifying the required structural features of these small molecules allowed optimization of their negative allosteric modulator (NAM) actions at …


High-Throughput Data Analysis: Application To Micronuclei Frequency And T-Cell Receptor Sequencing, Mateusz Makowski Jan 2015

High-Throughput Data Analysis: Application To Micronuclei Frequency And T-Cell Receptor Sequencing, Mateusz Makowski

Theses and Dissertations

The advent of high-throughput sequencing has brought about the creation of an unprecedented amount of research data. Analytical methodology has not been able to keep pace with the plethora of data being produced. Two assays, ImmunoSEQ and the cytokinesisblock micronucleus (CBMN), that both produce count data and have few methods available to analyze them are considered.

ImmunoSEQ is a sequencing assay that measures the beta T-cell receptor (TCR) repertoire. The ImmunoSEQ assay was used to describe the TCR repertoires of patients that have undergone hematopoietic stem cell transplantation (HSCT). Several different methods for spectratype analysis were extended to the TCR …