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Importance Of Specific Nk Cell Subsets For Antitumor Immunity In Hpv+ Cancers, Madison O'Hara May 2024

Importance Of Specific Nk Cell Subsets For Antitumor Immunity In Hpv+ Cancers, Madison O'Hara

Dissertations and Theses (Open Access)

High-risk type human papillomaviruses (HPV) are associated with genital and oral cancers, and the incidence of HPV+ head and neck squamous cell cancers is fast increasing worldwide. Survival rates for patients with locally advanced disease are poor and variable after standard of care (SOC) treatment. Identifying the antitumor host immune mediators important for treatment response and designing strategies to promote them are essential for improving clinical outcome. The natural killer (NK) cells are a critical component for antitumor innate effector immunity. Among the multitude of activation and inhibitory receptors on immune cells, HLA-DR is recognized as an important activation marker …


Molecular Basis Of Cell Membrane Adaption Against Daptomycin In Enterococcus Faecalis, April Nguyen May 2024

Molecular Basis Of Cell Membrane Adaption Against Daptomycin In Enterococcus Faecalis, April Nguyen

Dissertations and Theses (Open Access)

Daptomycin is a last-resort lipopeptide antibiotic that disrupts cell membrane (CM) and peptidoglycan homeostasis (Grein et al., 2020a; Müller et al., 2016a). Enterococcus faecalis has developed a sophisticated mechanism to avoid daptomycin killing by redistributing CM anionic phospholipids away from the septum. The CM changes are orchestrated by a three-component regulatory system, designated LiaFSR, with a possible contribution of cardiolipin synthase (Cls) (Cesar A Arias et al., 2011a; Khan et al., 2019b; Palmer et al., 2011a; Panesso et al., 2015a; Reyes et al., 2015a). However, the mechanism by which LiaFSR controls the cell membrane response and the role of Cls …


Regulation Of Cd4 T Cell Functions By Ncrna-Mediated Signaling Pathways During Chronic Viral Infections, Lam Nguyen May 2024

Regulation Of Cd4 T Cell Functions By Ncrna-Mediated Signaling Pathways During Chronic Viral Infections, Lam Nguyen

Electronic Theses and Dissertations

CD4 T cell homeostasis and competency are critical for the effectiveness of antiviral immunity. However, CD4 T cells derived from people living with HIV (PLWH) and individuals with chronic HCV infection often exhibit an inflammaging phenotype, evidenced by persistent inflammation, immune activation, exhaustion, senescence, and cellular apoptosis. Despite intensive investigations, the molecular mechanisms underlying CD4 T cell dysfunction in antiretroviral therapy (ART)-controlled PLWH and HCV-infected patients remain poorly understood. By investigating the roles of non-coding (nc)RNA transcripts in regulating the functions of CD4 T cells derived from PLWH and HCV-infected patients, we demonstrated that long non-coding (lnc)RNA - growth arrest-specific …


Navigating School Restructuring In The Post-Covid Era: A Principal’S Perspective In Sustaining Organizational Health While Bridging The Academic Achievement Gap, Alma Alicia Perez-Campos May 2024

Navigating School Restructuring In The Post-Covid Era: A Principal’S Perspective In Sustaining Organizational Health While Bridging The Academic Achievement Gap, Alma Alicia Perez-Campos

Theses and Dissertations

In 2019, the COVID-19 pandemic led to nationwide school closures, followed by a mandate for schools to reopen in 2020, posing challenges for ensuring both educational continuity and student safety. This paper presents findings from a mixed-method study involving ten campus principals in District A, South Texas, post-pandemic. Qualitatively, the study explored the principals' perspectives on restructuring their campuses to address achievement gaps while maintaining organizational health. Quantitatively, it examined the relationship between achievement and organizational health scores and any differences in organizational health pre- and post-COVID-19. The study aimed to offer insights for future …


Hierarchal Single-Cell Lineage Tracing Reveals Differential Fate Commitment Of Cd8 T-Cell Clones In Response To Acute Infection., Leena Abdullah May 2024

Hierarchal Single-Cell Lineage Tracing Reveals Differential Fate Commitment Of Cd8 T-Cell Clones In Response To Acute Infection., Leena Abdullah

Dartmouth College Ph.D Dissertations

Generating balanced populations of CD8 effector and memory T cells is necessary for immediate and durable immunity to infections and cancer. Yet, a definitive understanding of CD8 differentiation remains unclear. Here we used CARLIN, a processive lineage recording mouse model with single-cell RNA-seq and TCR-seq to track endogenous antigen-specific CD8 T cells during acute viral infection.

Transcriptional profiling of antigen-specific T cells at the peak of the effector response to Vesicular stomatitis virus uncovered a diverse repertoire of expanded antigen-specific T-cell clones represented by seven transcriptional states. TCR enrichment analysis identified TCR clones with differential memory- or effector-fate biases during …


Exploring Suicide Loss Survivorship And Postvention Support During The Coronavirus 2019 Pandemic, Sean Robert Kershaw May 2024

Exploring Suicide Loss Survivorship And Postvention Support During The Coronavirus 2019 Pandemic, Sean Robert Kershaw

Dissertations

Suicide is both a severe and pervasive issue in our society (Centers for Disease Control and Prevention [CDC], 2023b). For every suicide, the loved ones of the deceased who are left behind face a long, arduous journey of grieving. Suicide loss survivors who emerged throughout the COVID-19 pandemic arguably encountered more unique challenges during this global crisis than in times past. However, research regarding suicide loss survivorship experiences during the pandemic remains largely overlooked. Therefore, this novel qualitative phenomenological study aimed to capture the lived experiences of those who became suicide loss survivors during the COVID-19 pandemic, in addition to …


One Year Follow Up Of A Cross-Sectional Study Of Hookworm Infection And Response To Deworming In Beposo, Ghana, Taylor Clarkson May 2024

One Year Follow Up Of A Cross-Sectional Study Of Hookworm Infection And Response To Deworming In Beposo, Ghana, Taylor Clarkson

Capstone Experience: Master of Public Health

Hookworms are soil-transmitted helminths that infect over 500 million people worldwide, primarily those in low-income countries. Infection with hookworm can cause anemia, malnutrition, and stunted physical and cognitive development. Deworming campaigns have attempted to combat hookworm infections in endemic areas for decades. However, there is growing variability in the effectiveness of deworming drugs, and post-treatment reinfections are abundant. There are significant gaps in our understanding of critical host-parasite factors that mediate hookworm infection, reinfection, and response to deworming treatment in endemic communities. A five-year prospective study was undertaken to better understand drivers of hookworm infection in rural Ghana and thus …


Evaluating The Association Of Influenza Vaccination On Long-Term Covid-19 Symptoms In U.S. Adults, Ratnakar Pingili May 2024

Evaluating The Association Of Influenza Vaccination On Long-Term Covid-19 Symptoms In U.S. Adults, Ratnakar Pingili

Capstone Experience: Master of Public Health

Objective. To evaluate the association of influenza vaccination in the past 12 months with Long COVID effects and clinical and sociodemographic factors.

Methods. Cross-sectional study with data from the 2022 Behavioral Risk Factor Surveillance System (BRFSS), covering 415,132 non-institutionalized U.S. adults with a confirmed COVID-19 diagnosis and influenza vaccination reported within the last 12 months. Logistic regression was conducted between influenza vaccination (exposure) and Long COVID (outcome), controlling for demographic variables, pre-existing health conditions, and socioeconomic status.

Results. Of 120,603 participants, 21.89% reported Long COVID symptoms and 42.04% had received an influenza vaccine. Findings indicate a statistically significant 13% reduction …


Understanding Infectious Disease Consultation Role For Septic Patients In The Medical Intensive Care Unit, Marisa Stratelak, Cloe Nazeer, Bhavinkumar Dalal May 2024

Understanding Infectious Disease Consultation Role For Septic Patients In The Medical Intensive Care Unit, Marisa Stratelak, Cloe Nazeer, Bhavinkumar Dalal

Posters

  • Sepsis is a medical emergency requiring immediate recognition and prompt treatment.
  • 1 in every 3 hospitalized patients who die have sepsis1.
  • The mortality rate for patients with severe sepsis in the intensive care unit (ICU) is 32.2%2.
  • Early intervention with fluid resuscitation and intravenous antibiotics can reduce mortality rates by 7-9%3.
  • Infectious disease (ID) consultation on antimicrobial therapy in the ICU is associated with reduced ICU mortality and ICU length of stay (LOS)4.
  • Gaps in literature exist regarding frequency of ID consultation for septic patients in the ICU, including comparing outcomes of patients with and without ID consultation.
  • It is …


Achieving Responsible Anomaly Detection, Xiao Han May 2024

Achieving Responsible Anomaly Detection, Xiao Han

All Graduate Theses and Dissertations, Fall 2023 to Present

In the digital transformation era, safeguarding online systems against anomalies – unusual patterns indicating potential threats or malfunctions – has become crucial. This dissertation embarks on enhancing the accuracy, explainability, and ethical integrity of anomaly detection systems. By integrating advanced machine learning techniques, it improves anomaly detection performance and incorporates fairness and explainability at its core.

The research tackles performance enhancement in anomaly detection by leveraging few-shot learning, demonstrating how systems can effectively identify anomalies with minimal training data. This approach overcomes data scarcity challenges. Reinforcement learning is employed to iteratively refine models, enhancing decision-making processes. Transfer learning enables the …


Spatiotemporal Dynamics Of Disease: Social And Environmental Drivers Of Movement, Connectivity, And Disease Transmission In Bighorn Sheep, Lauren E. Ricci May 2024

Spatiotemporal Dynamics Of Disease: Social And Environmental Drivers Of Movement, Connectivity, And Disease Transmission In Bighorn Sheep, Lauren E. Ricci

All Graduate Theses and Dissertations, Fall 2023 to Present

Movement is a fundamental component of animal ecology. Animals move in order to access resources and avoid risk. Movement decisions aggregated across time determine how individuals use space, contact dynamics between individuals within a population, and connectivity across a species range. These patterns that emerge from movement decisions have downstream implications for many ecological processes and a mechanistic understanding of movement can help answer broader questions about ecology.

Disease dynamics are intrinsically tied to movement. Understanding the mechanisms that drive movement can elucidate how disease will spread and impact host populations. In this vein, I employed a suite of movement …


Spatial Ecology Of Mule Deer Migrations From Grand Teton National Park And The Teton Range, Justin K. Schwabedissen May 2024

Spatial Ecology Of Mule Deer Migrations From Grand Teton National Park And The Teton Range, Justin K. Schwabedissen

All Graduate Theses and Dissertations, Fall 2023 to Present

The Greater Yellowstone Ecosystem hosts several of the longest, fully intact ungulate migrations remaining in the continental United States. However, expanding development and an increasing human footprint continue to truncate migratory routes. While the endpoints are often a seasonal range on protected lands, these migration corridors frequently cross other jurisdictional boundaries, including large tracts of private or multiple-use lands, with varying levels of protection. Thus, it is critical resource managers understand the dynamics of migratory movements to define population-level corridors and prioritize appropriate conservation strategies. Mule deer in Wyoming have been documented traveling long distances between summer and winter ranges; …


Vectors And Vector Borne Disease: Models For The Spread Of Curly Top Disease And Culex Mosquito Abundance, Rachel M. (Frantz) Georges May 2024

Vectors And Vector Borne Disease: Models For The Spread Of Curly Top Disease And Culex Mosquito Abundance, Rachel M. (Frantz) Georges

All Graduate Theses and Dissertations, Fall 2023 to Present

Mathematical models are useful tools in managing infectious disease. When designed appropriately, these models can provide insight into disease incidence patterns and transmission rates. In this work, we present several models that provide information that is useful in monitoring diseases spread by insects.

In the first part of this dissertation, we present two models that predict disease incidence patterns for Curly Top disease (CT) in tomato crops. CT affects a wide variety of plants and is spread through the bite of the Beet Leafhopper. This disease is particularly devastating to tomato crops. When infected, tomato plants present with stunted growth …


Selective Transfection Of A Transferrin Receptor-Expressing Cell Line With Dna-Lipid Nanoparticles And Synthesis Of Parasite-Derived Glycans As Biomarkers For Leishmaniasis, Irodiel Vinales Lozano May 2024

Selective Transfection Of A Transferrin Receptor-Expressing Cell Line With Dna-Lipid Nanoparticles And Synthesis Of Parasite-Derived Glycans As Biomarkers For Leishmaniasis, Irodiel Vinales Lozano

Open Access Theses & Dissertations

Despite notable progress in lipid nanoparticle (LNP)-mediated gene delivery, achieving selective transfection of specific cell types, such as cancer cells, remains a significant hurdle, hindering the advancement of innovative gene therapies. In this study, we engineered an LNP formulation encapsulating plasmid DNA (pDNA) encoding the monomeric Green Lantern (mGL) fluorescent reporter protein. The DT7 peptide ligand targeting human transferrin receptor 1 (hTfR1) was also conjugated to the LNP surface for targeted delivery to hTfR1-expressing cells. Optimization of LNP composition yielded favorable particle diameter, ζ-potential, yield, and pDNA encapsulation efficiency. Evaluation of transfection selectivity using a panel of two engineered cell …


Synthesis Of Neoglycoproteins As Potential Biomarkers For Chagas Disease And Cutaneous Leishmaniasis Caused By Leishmania (Viannia) Braziliensis, Eileni Rodriguez Gil May 2024

Synthesis Of Neoglycoproteins As Potential Biomarkers For Chagas Disease And Cutaneous Leishmaniasis Caused By Leishmania (Viannia) Braziliensis, Eileni Rodriguez Gil

Open Access Theses & Dissertations

Protozoan parasites are responsible for causing numerous diseases in humans and mammals worldwide. Among them are Chagas disease (CD), caused by the parasite Trypanosoma cruzi (T. cruzi), and tegumentary leishmaniasis (TL), caused by the parasite Leishmania (Viannia). Both diseases coexist in many regions of Latin America, and current hurdles to differentially diagnose them and determine chemotherapy success need to be overcome. CD can be diagnosed by traditional serological tests and polymerase chain reaction (PCR), but disadvantages of these methods are that they may produce false negatives because the antigens used in commercial CD kits are not conserved across all T.cruzi …


Institutionalized Stigmas: Hiv Stigma, Racism And Heterosexism Among Medical Students In The Southern United States, Krishen D. Samuel May 2024

Institutionalized Stigmas: Hiv Stigma, Racism And Heterosexism Among Medical Students In The Southern United States, Krishen D. Samuel

Graduate Theses and Dissertations

Background: Intersecting and related forms of stigma, including HIV-related stigma, racism, and heterosexism, disproportionately impact both communities vulnerable to acquiring HIV and people living with HIV (PLHIV), ultimately impacting more distal outcomes related to HIV prevention, treatment, and epidemiological patterns in the United States (US). The Southern US is the region most impacted by new HIV diagnoses, mainly among Black men who have sex with men (MSM). However, there is a paucity of research on medical students, specifically those in the Southern US, regarding stigmatizing attitudes they may hold towards PLHIV, and how these associate with racism and heterosexism. This …


Evaluation Of The Effect Of A Commercial Lippia Origanoides Essential Oil Extract On Salmonella Serovar Enteritidis As A Natural Alternative To Antibiotics In The Poultry Industry, Abdiel Atencio May 2024

Evaluation Of The Effect Of A Commercial Lippia Origanoides Essential Oil Extract On Salmonella Serovar Enteritidis As A Natural Alternative To Antibiotics In The Poultry Industry, Abdiel Atencio

Graduate Theses and Dissertations

The purpose of the present research was to evaluate the bactericidal activity of a microencapsulated Lippia origanoides essential oils (LOEOs) against Salmonella Enteritidis (SE) in an in vitro crop assay and in a prophylactic broiler chicken model using three low doses of the product: 75 ppm, 150 ppm and 300 ppm. Two trials of each assay were conducted. Day-of-hatch male Cobb-Vantress broiler chickens were randomly allotted to one of four groups: 1) positive control group; 2) 75 ppm LOEOs group; 3) 150 ppm LOEOs group; 4) 300 LOEOs group. Chicks were fed and watered ad libitum in heated brooder batteries …


Developing Anisotropic Soft Matter As Functional Materials To Interface With Biological Systems, Homa Ghaiedi May 2024

Developing Anisotropic Soft Matter As Functional Materials To Interface With Biological Systems, Homa Ghaiedi

Graduate Theses and Dissertations

Liquid crystals (LCs) constitute a subset of soft matter possessing hybrid characteristics from both liquid and crystalline phases. In this state, the center of masses remains uncorrelated similar to an isotropic phase, while the long axis of molecules aligns in parallel, resulting in molecules exhibiting orientational and positional order, either individually or concurrently. The directional alignment inherent in LCs arises from the asymmetrical shape and structure of the constituent molecules, causing a spontaneous self-assembly into ordered phases. This cooperative molecular behavior manifests distinctive optical features when subjected to cross polarizers. The remarkable sensitivity of LCs to external stimuli, including temperature, …


Utilization Of The NuTrack System To Objectively Evaluate Changes In Active And Passive Behaviors Of Group-Housed Nursery Pigs Exposed To An Endotoxin Challenge, Aaron Holliday May 2024

Utilization Of The NuTrack System To Objectively Evaluate Changes In Active And Passive Behaviors Of Group-Housed Nursery Pigs Exposed To An Endotoxin Challenge, Aaron Holliday

Department of Animal Science: Dissertations, Theses, and Student Research

This study aimed to evaluate the changes in activity of group-housed, newly weaned pigs challenged with lipopolysaccharide (LPS). At weaning, pigs (n = 192, 5.73 ± 1.8 kg) were stratified by sex, litter, and body weight (BW) and randomly assigned to one of three treatments (16 pigs/pen, 4 pens/treatment): 1) Saline-injected (SAL), 2) 50% challenged [50%-LPS) – only half of the pigs in a pen (8 pigs) were challenged with LPS and 3) 100% challenged (100%-LPS) – all pigs in a pen were challenged with LPS. Pigs in the SAL and 32 in the 50%-LPS treatment received a 3.0 …


Adding Parasite Resistance To A Hair Sheep Breeding Objective, Robert M. Forbes May 2024

Adding Parasite Resistance To A Hair Sheep Breeding Objective, Robert M. Forbes

Department of Animal Science: Dissertations, Theses, and Student Research

The United States Hair Sheep Index was designed to increase total weight of lamb weaned per ewe lambing (TW) using estimated breeding values (EBV) for direct (DWWT) and maternal (MWWT) weaning weight, and number of lambs born (NLB) and weaned (NLW), as selection criteria. Producers are interested in adding post-weaning fecal egg count EBV (PFEC), an indicator of parasite resistance, to the index to achieve genetic change in both TW and PFEC.

First, the effects of adding PFEC alongside TW to the breeding objective of indexes that used either phenotypes or EBV as selection criteria were studied. Since MWWT …


Model Tuning Or Prompt Tuning? A Study Of Large Language Models For Clinical Concept And Relation Extraction, Cheng Peng, Xi Yang, Kaleb E Smith, Zehao Yu, Aokun Chen, Jiang Bian, Yonghui Wu May 2024

Model Tuning Or Prompt Tuning? A Study Of Large Language Models For Clinical Concept And Relation Extraction, Cheng Peng, Xi Yang, Kaleb E Smith, Zehao Yu, Aokun Chen, Jiang Bian, Yonghui Wu

Faculty, Staff and Student Publications

Objective: To develop soft prompt-based learning architecture for large language models (LLMs), examine prompt-tuning using frozen/unfrozen LLMs, and assess their abilities in transfer learning and few-shot learning.

Methods: We developed a soft prompt-based learning architecture and compared 4 strategies including (1) fine-tuning without prompts; (2) hard-prompting with unfrozen LLMs; (3) soft-prompting with unfrozen LLMs; and (4) soft-prompting with frozen LLMs. We evaluated GatorTron, a clinical LLM with up to 8.9 billion parameters, and compared GatorTron with 4 existing transformer models for clinical concept and relation extraction on 2 benchmark datasets for adverse drug events and social determinants of health (SDoH). …


Immune-Monitoring Of Myelodysplastic Neoplasms: Recommendations From The I4mds Consortium, Cristina A Tentori, Lin P Zhao, Benedetta Tinterri, Kathryn E Strange, Katharina Zoldan, Konstantinos Dimopoulos, Xingmin Feng, Elena Riva, Benjamin Lim, Yannick Simoni, Vidhya Murthy, Madeline J Hayes, Antonella Poloni, Eric Padron, Bruno A Cardoso, Michael Cross, Susann Winter, Aida Santaolalla, Bhavisha A Patel, Emma M Groarke, Daniel H Wiseman, Katy Jones, Lauren Jamieson, Charles Manogaran, Naval Daver, Laura Gallur, Wendy Ingram, P Brent Ferrell, Katja Sockel, Nicolas Dulphy, Nicolas Chapuis, Anne S Kubasch, Astrid M Olsnes, Austin Kulasekararaj, Hugues De Lavellade, Wolfgang Kern, Mieke Van Hemelrijck, Dominique Bonnet, Theresia M Westers, Sylvie Freeman, Uta Oelschlaegel, David Valcarcel, Marco G Raddi, Kirsten Grønbæk, Michaela Fontenay, Sanam Loghavi, Valeria Santini, Antonio M Almeida, Jonathan M Irish, David A Sallman, Neal S Young, Arjan A Van De Loosdrecht, Lionel Adès, Matteo G Della Porta, Catherine Cargo, Uwe Platzbecker, Shahram Kordasti, I4mds Consortium May 2024

Immune-Monitoring Of Myelodysplastic Neoplasms: Recommendations From The I4mds Consortium, Cristina A Tentori, Lin P Zhao, Benedetta Tinterri, Kathryn E Strange, Katharina Zoldan, Konstantinos Dimopoulos, Xingmin Feng, Elena Riva, Benjamin Lim, Yannick Simoni, Vidhya Murthy, Madeline J Hayes, Antonella Poloni, Eric Padron, Bruno A Cardoso, Michael Cross, Susann Winter, Aida Santaolalla, Bhavisha A Patel, Emma M Groarke, Daniel H Wiseman, Katy Jones, Lauren Jamieson, Charles Manogaran, Naval Daver, Laura Gallur, Wendy Ingram, P Brent Ferrell, Katja Sockel, Nicolas Dulphy, Nicolas Chapuis, Anne S Kubasch, Astrid M Olsnes, Austin Kulasekararaj, Hugues De Lavellade, Wolfgang Kern, Mieke Van Hemelrijck, Dominique Bonnet, Theresia M Westers, Sylvie Freeman, Uta Oelschlaegel, David Valcarcel, Marco G Raddi, Kirsten Grønbæk, Michaela Fontenay, Sanam Loghavi, Valeria Santini, Antonio M Almeida, Jonathan M Irish, David A Sallman, Neal S Young, Arjan A Van De Loosdrecht, Lionel Adès, Matteo G Della Porta, Catherine Cargo, Uwe Platzbecker, Shahram Kordasti, I4mds Consortium

Faculty, Staff and Student Publications

Advancements in comprehending myelodysplastic neoplasms (MDS) have unfolded significantly in recent years, elucidating a myriad of cellular and molecular underpinnings integral to disease progression. While molecular inclusions into prognostic models have substantively advanced risk stratification, recent revelations have emphasized the pivotal role of immune dysregulation within the bone marrow milieu during MDS evolution. Nonetheless, immunotherapy for MDS has not experienced breakthroughs seen in other malignancies, partly attributable to the absence of an immune classification that could stratify patients toward optimally targeted immunotherapeutic approaches. A pivotal obstacle to establishing "immune classes" among MDS patients is the absence of validated accepted immune …


High-Grade Pleomorphic Sarcomas Treated With Immune Checkpoint Blockade: The Md Anderson Cancer Center Experience, Lewis F Nasr, Marianne Zoghbi, Rossana Lazcano, Michael Nakazawa, Andrew J Bishop, Ahsan Farooqi, Devarati Mitra, Beverly Ashleigh Guadagnolo, Robert Benjamin, Shreyaskumar Patel, Vinod Ravi, Dejka M Araujo, Andrew Livingston, Maria A Zarzour, Anthony P Conley, Ravin Ratan, Neeta Somaiah, Alexander J Lazar, Christina Roland, Emily Z Keung, Elise F Nassif Haddad May 2024

High-Grade Pleomorphic Sarcomas Treated With Immune Checkpoint Blockade: The Md Anderson Cancer Center Experience, Lewis F Nasr, Marianne Zoghbi, Rossana Lazcano, Michael Nakazawa, Andrew J Bishop, Ahsan Farooqi, Devarati Mitra, Beverly Ashleigh Guadagnolo, Robert Benjamin, Shreyaskumar Patel, Vinod Ravi, Dejka M Araujo, Andrew Livingston, Maria A Zarzour, Anthony P Conley, Ravin Ratan, Neeta Somaiah, Alexander J Lazar, Christina Roland, Emily Z Keung, Elise F Nassif Haddad

Faculty, Staff and Student Publications

BACKGROUND: Undifferentiated pleomorphic sarcomas (UPSs) are amongst the most common subtypes of soft-tissue sarcomas. Few real-world data on the use of immune checkpoint blockade (ICB) in UPS patients and other high-grade pleomorphic STS patients are available.

PURPOSE: The purpose of our study is to describe the efficacy and toxicity of ICB in patients with advanced UPSs and other high-grade pleomorphic sarcomas treated at our institution.

METHODS: This is a retrospective, observational study of all patients with metastatic high-grade pleomorphic sarcomas treated with FDA-approved ICB at MD Anderson Cancer Center between 1 January 2015 and 1 January 2023. Patients included in …


Identifying Temporomandibular Disorder Morphological Risk Factors Via Explainable Deep Learning And Multiscale Biomechanical Modeling, Shuchun Sun May 2024

Identifying Temporomandibular Disorder Morphological Risk Factors Via Explainable Deep Learning And Multiscale Biomechanical Modeling, Shuchun Sun

All Dissertations

Clarifying multifactorial musculoskeletal disorder etiologies supports risk analysis and development of targeted prevention and treatment modalities. Deep learning enables comprehensive risk factor identification through systematic analysis of disease datasets but does not provide sufficient context for mechanistic understanding, limiting clinical applicability for etiological investigations. Conversely, multiscale biomechanical modeling can evaluate mechanistic etiology within the relevant biomechanical and physiological context. We propose a hybrid approach combining 3D explainable deep learning and multiscale biomechanical modeling; we applied this approach to investigate temporomandibular joint (TMJ) disorder etiology by systematically identifying risk factors and elucidating mechanistic relationships between risk factors and TMJ biomechanics and …


Correlation Between Il-6 And Age In Covid-19: Insights From A Cross-Sectional Analysis In Malang, Indonesia, Agustin Iskandar, Dearikha Karina Mayashinta, Catur Suci Sutrisnani, Nur Samsu, Agustina Tri Endharti, Edy Widjajanto May 2024

Correlation Between Il-6 And Age In Covid-19: Insights From A Cross-Sectional Analysis In Malang, Indonesia, Agustin Iskandar, Dearikha Karina Mayashinta, Catur Suci Sutrisnani, Nur Samsu, Agustina Tri Endharti, Edy Widjajanto

Baghdad Science Journal

Interleukin 6 (IL-6) has been identified as a predictor of severity and mortality in COVID-19. Although morbidity and mortality generally increase with age, it remains uncertain whether there is a correlation between age and IL-6 levels, thereby exacerbating the severity of COVID-19 in patients. The objective of this study was to examine the correlation between age and IL-6 levels in COVID-19 patients. The study was cross-sectional, analyzing laboratory and medical records of 3,171 COVID-19 patients who received treatment in 2021 at Saiful Anwar General Hospital. The Data analyzed using Kruskal-Wallis, Dunnett's Post Hoc, and Spearman Correlation tests. The patients were …


Use Of Advanced Diagnostics For Timely Identification Of Travel-Associated Leptospira Santarosai Infection In Four Adolescents Through Plasma Microbial Cell-Free Dna Sequencing With The Karius Test, Hai Nguyen-Tran, Guliz Erdem, P Marcelo Laufer, Lori Patterson, Asim A Ahmed, William A Bower, Renee Galloway, Sara Saporta-Keating May 2024

Use Of Advanced Diagnostics For Timely Identification Of Travel-Associated Leptospira Santarosai Infection In Four Adolescents Through Plasma Microbial Cell-Free Dna Sequencing With The Karius Test, Hai Nguyen-Tran, Guliz Erdem, P Marcelo Laufer, Lori Patterson, Asim A Ahmed, William A Bower, Renee Galloway, Sara Saporta-Keating

Faculty, Staff and Student Publications

Background: Leptospirosis is an important zoonotic infection worldwide. Diagnosis of leptospirosis is challenging given its nonspecific clinical symptoms that overlap with other acute febrile illnesses and limitations with conventional diagnostic testing. Alternative advanced diagnostics, such as microbial cell-free DNA (mcfDNA), are increasingly being used to aid in the diagnosis of infections and can be applied to pathogens with public health importance such as Leptospira , a nationally notifiable disease.

Methods: The Karius Test uses plasma mcfDNA sequencing to detect and quantify DNA-based pathogens. This test offered through the Karius lab detected 4 cases of Leptospira santarosai during a 5-month period …


Practical Approaches For Supporting Informed Consent In Neonatal Clinical Trials, Susan H Wootton, Matthew Rysavy, Peter Davis, Marta Thio, Mar Romero-Lopez, Lindsay F Holzapfel, Tamara Thrasher, Jaleesa D Wade, Louise S Owen May 2024

Practical Approaches For Supporting Informed Consent In Neonatal Clinical Trials, Susan H Wootton, Matthew Rysavy, Peter Davis, Marta Thio, Mar Romero-Lopez, Lindsay F Holzapfel, Tamara Thrasher, Jaleesa D Wade, Louise S Owen

Faculty, Staff and Student Publications

The survival and health of preterm and critically ill infants have markedly improved over the past 50  years, supported by well-conducted neonatal research. However, newborn research is difficult to undertake for many reasons, and obtaining informed consent for research in this population presents several unique ethical and logistical challenges. In this article, we explore methods to facilitate the consent process, including the role of checklists to support meaningful informed consent for neonatal clinical trials. CONCLUSION: The authors provide practical guidance on the design and implementation of an effective consent checklist tailored for use in neonatal clinical research.


Defining The Phylogenetics And Resistome Of The Major Clostridioides Difficile Ribotypes Circulating In Australia, Keeley O’Grady, Stacey Hong, Papanin Putsathit, Narelle George, Christine Hemphill, Peter G. Huntington, Tony M. Korman, Despina Kotsanas, Monica Lahra, Rodney Mcdougall, Andrew Mcglinchey, Avram Levy, Casey V. Moore, Graeme Nimmo, Louise Prendergast, Jennifer Robson, David J. Speers, Lynette Waring, Michael C. Wehrhahn, Gerhard F. Weldhagen, Richard M. Wilson, Thomas V. Riley, Daniel R. Knight May 2024

Defining The Phylogenetics And Resistome Of The Major Clostridioides Difficile Ribotypes Circulating In Australia, Keeley O’Grady, Stacey Hong, Papanin Putsathit, Narelle George, Christine Hemphill, Peter G. Huntington, Tony M. Korman, Despina Kotsanas, Monica Lahra, Rodney Mcdougall, Andrew Mcglinchey, Avram Levy, Casey V. Moore, Graeme Nimmo, Louise Prendergast, Jennifer Robson, David J. Speers, Lynette Waring, Michael C. Wehrhahn, Gerhard F. Weldhagen, Richard M. Wilson, Thomas V. Riley, Daniel R. Knight

Research outputs 2022 to 2026

Clostridioides difficile infection (CDI) remains a significant public health threat globally. New interventions to treat CDI rely on an understanding of the evolution and epidemiology of circulating strains. Here we provide longitudinal genomic data on strain diversity, transmission dynamics and antimicrobial resistance (AMR) of C. difficile ribotypes (RTs) 014/020 (n=169), 002 (n=77) and 056 (n=36), the three most prominent C. difficile strains causing CDI in Australia. Genome scrutiny showed that AMR was uncommon in these lineages, with resistance-conferring alleles present in only 15/169 RT014/020 strains (8.9 %), 1/36 RT056 strains (2.78 %) and none of 77 RT002 strains. Notably, ~90 …


Sars-Cov-2 Viral Load In The Nasopharynx At Time Of First Infection Among Unvaccinated Individuals, Leigh H Fisher, Jia Jin Kee, Albert Liu, Claudia M Espinosa, April K Randhawa, James Ludwig, Craig A Magaret, Samuel T Robinson, Peter B Gilbert, Ollivier Hyrien, James G Kublin, Nadine Rouphael, Ann R Falsey, Magdalena E Sobieszczyk, Hana M El Sahly, Beatriz Grinsztejn, Glenda E Gray, Karen L Kotloff, Cynthia L Gay, Brett Leav, Ian Hirsch, Frank Struyf, Lisa M Dunkle, Kathleen M Neuzil, Lawrence Corey, Yunda Huang, Paul A Goepfert, Stephen R Walsh, Lindsey R Baden, Holly Janes, Covid-19 Prevention Network (Covpn) May 2024

Sars-Cov-2 Viral Load In The Nasopharynx At Time Of First Infection Among Unvaccinated Individuals, Leigh H Fisher, Jia Jin Kee, Albert Liu, Claudia M Espinosa, April K Randhawa, James Ludwig, Craig A Magaret, Samuel T Robinson, Peter B Gilbert, Ollivier Hyrien, James G Kublin, Nadine Rouphael, Ann R Falsey, Magdalena E Sobieszczyk, Hana M El Sahly, Beatriz Grinsztejn, Glenda E Gray, Karen L Kotloff, Cynthia L Gay, Brett Leav, Ian Hirsch, Frank Struyf, Lisa M Dunkle, Kathleen M Neuzil, Lawrence Corey, Yunda Huang, Paul A Goepfert, Stephen R Walsh, Lindsey R Baden, Holly Janes, Covid-19 Prevention Network (Covpn)

Faculty, Staff and Student Publications

Importance: SARS-CoV-2 viral load (VL) in the nasopharynx is difficult to quantify and standardize across settings, but it may inform transmission potential and disease severity.

Objective: To characterize VL at COVID-19 diagnosis among previously uninfected and unvaccinated individuals by evaluating the association of demographic and clinical characteristics, viral variant, and trial with VL, as well as the ability of VL to predict severe disease.

Design, setting, and participants: This secondary cross-protocol analysis used individual-level data from placebo recipients from 4 harmonized, phase 3 COVID-19 vaccine efficacy trials sponsored by Moderna, AstraZeneca, Janssen, and Novavax. Participants were SARS-CoV-2 negative at baseline …


Experiences In Vocal Psychotherapy Of A Music Therapy Intern With Post-Covid Symptoms, Kyungwon Matilda Choi May 2024

Experiences In Vocal Psychotherapy Of A Music Therapy Intern With Post-Covid Symptoms, Kyungwon Matilda Choi

Theses & Dissertations

The purpose of this study was to explore my experiences in vocal psychotherapy as a music therapy intern with Long COVID symptoms. This study employed a first-person qualitative research design by assessing two personal therapy sessions with heuristic inquiry. I analyzed my experience as a client receiving 60-minute individual vocal psychotherapy sessions. The music therapist was a trained (certified) vocal psychotherapist with at least five years of clinical practice. Data were collected from recorded session audio/video and personal journals. The recorded session audio/video were transcribed so the data could be analyzed. I asked and answered the research questions as this …