Antibacterial Activity, Structure-Activity Relationships, And Scale-Up Reaction Of 1,3,4-Oxadiazoles, Olivia Marie Smith

Undergraduate Honors Thesis Projects

Oxadiazoles are compounds in the field of organic chemistry that have been gathering interest in the medicinal chemistry and microbiology communities for their biological properties, which range from anti-inflammatory agents, to chemotherapy drugs, to antibiotics. The synthesis of oxadiazoles can be difficult due to the expensive and complex nature of the techniques used as well as the volatile reagents and elevated temperatures that are often required in organic synthesis. The Grote lab has recently developed a new method for the synthesis of 1,3,4-oxadiazoles under mild conditions. The goals of this thesis were thus twofold: to develop a viable scale-up procedure …

Television Viewing Time And All-Cause Mortality: Interactions With Bmi, Physical Activity, Smoking, And Dietary Factors, Christopher T. Swain, Julie K. Bassett, Allison M. Hodge, David W. Dunstan, Neville Owen, Yi Yang, Harindra Jayasekara, James R. Hébert Scd, Nitin Shivappa Mbbs, Mph, Ph.D., Robert J. Macinnis, Roger L. Milne, Dallas R. English, Brigid M. Lynch

Faculty Publications

Background Higher levels of time spent sitting (sedentary behavior) contribute to adverse health outcomes, including earlier death. This effect may be modified by other lifestyle factors. We examined the association of television viewing (TV), a common leisure-time sedentary behavior, with all-cause mortality, and whether this is modified by body mass index (BMI), physical activity, smoking, alcohol intake, soft drink consumption, or diet-associated inflammation. Methods Using data from participants in the Melbourne Collaborative Cohort Study, flexible parametric survival models assessed the time-dependent association of self-reported TV time (three categories: < 2 h/day, 2-3 h/day, > 3 h/day) with all-cause mortality. Interaction terms were fitted to test whether …

Fusionai, A Dna-Sequence-Based Deep Learning Protocol Reduces The False Positives Of Human Fusion Gene Prediction, Pora Kim, Hua Tan, Jiajia Liu, Himansu Kumar, Xiaobo Zhou

Faculty, Staff and Student Publications

Even though there were many tool developments of fusion gene prediction from NGS data, too many false positives are still an issue. Wise use of the genomic features around the fusion gene breakpoints will be helpful to identify reliable fusion genes efficiently. For this aim, we developed FusionAI, a deep learning pipeline predicting human fusion gene breakpoints from DNA sequence. FusionAI is freely available via https://compbio.uth.edu/FusionGDB2/FusionAI. For complete details on the use and execution of this protocol, please refer to Kim et al. (2021b).

A Non-Invasive Interpretable Diagnosis Of Melanoma Skin Cancer Using Deep Learning And Ensemble Stacking Of Machine Learning Models, Iftiaz A. Alfi, Mahfuzur Rahman, Mohammad Shorfuzzaman, Amril Nazir

All Works

A skin lesion is a portion of skin that observes abnormal growth compared to other areas of the skin. The ISIC 2018 lesion dataset has seven classes. A miniature dataset version of it is also available with only two classes: malignant and benign. Malignant tumors are tumors that are cancerous, and benign tumors are non-cancerous. Malignant tumors have the ability to multiply and spread throughout the body at a much faster rate. The early detection of the cancerous skin lesion is crucial for the survival of the patient. Deep learning models and machine learning models play an essential role in …

Arsenic In Groundwater Sources From Selected Communities Surrounding Taal Volcano, Philippines: An Exploratory Study, Geminn Louis C. Apostol, Sary Valenzuela, Xerxes Seposo

Ateneo School of Medicine and Public Health Publications

Arsenic (As) is a highly toxic, carcinogenic trace metal that can potentially contaminate groundwater sources in volcanic regions. This study provides the first comparative documentation of As concentrations in groundwater in a volcano-sedimentary region in the Philippines. Matched, repeated As measurements and physico-chemical analyses were performed in 26 individual wells from 11 municipalities and city in Batangas province from July 2020 to November 2021. Using the electrothermal atomic absorption spectrometric method, analysis of the wells revealed that in 2020, 23 out of 26 (88.46%) had As levels above the WHO limit of >10 ppb while 20 out of 26 wells …

A High Precision Machine Learning-Enabled System For Predicting Idiopathic Ventricular Arrhythmia Origins, Jianwei Zheng, Guohua Fu, Daniele Struppa, Islam Abudayyeh, Tahmeed Contractor, Kyle Anderson, Huimin Chu, Cyril Rakovski

Mathematics, Physics, and Computer Science Faculty Articles and Research

Background: Radiofrequency catheter ablation (CA) is an efficient antiarrhythmic treatment with a class I indication for idiopathic ventricular arrhythmia (IVA), only when drugs are ineffective or have unacceptable side effects. The accurate prediction of the origins of IVA can significantly increase the operation success rate, reduce operation duration and decrease the risk of complications. The present work proposes an artificial intelligence-enabled ECG analysis algorithm to estimate possible origins of idiopathic ventricular arrhythmia at a clinical-grade level accuracy.

Method: A total of 18,612 ECG recordings extracted from 545 patients who underwent successful CA to treat IVA were proportionally sampled into training, …

Determinants Of Covid-19 Vaccinations Among A State-Wide Year-Long Surveillance Initiative In A Conservative Southern State, Lídia Gual-Gonzalez, Maggie S.J. Mccarter, Kyndall Dye-Braumuller, Stella Self, Connor H. Ross, Chloe Rodriguez-Ramos, Virginie G. Daguise, Melissa Nolan Ph.D., Mph

Faculty Publications

By the end of 2021, the COVID-19 pandemic resulted in over 54 million cases and more than 800,000 deaths in the United States, and over 350 million cases and more than 5 million deaths worldwide. The uniqueness and gravity of this pandemic have been reflected in the public health guidelines poorly received by a growing subset of the United States population. These poorly received guidelines, including vaccine receipt, are a highly complex psychosocial issue, and have impacted the successful prevention of disease spread. Given the intricate nature of this important barrier, any single statistical analysis methodologically fails to address all …

Use Of Machine Learning Approaches And Statistical Techniques To Adjust For Nonadherence In Randomized Clinical Trials., Andrew G Chapple

School of Public Health Faculty Publications

No abstract provided.

Structural And Computational Studies Of The Sars-Cov-2 Spike Protein Binding Mechanisms With Nanobodies: From Structure And Dynamics To Avidity-Driven Nanobody Engineering, Gennady M. Verkhivker

Mathematics, Physics, and Computer Science Faculty Articles and Research

Nanobodies provide important advantages over traditional antibodies, including their smaller size and robust biochemical properties such as high thermal stability, high solubility, and the ability to be bioengineered into novel multivalent, multi-specific, and high-affinity molecules, making them a class of emerging powerful therapies against SARS-CoV-2. Recent research efforts on the design, protein engineering, and structure-functional characterization of nanobodies and their binding with SARS-CoV-2 S proteins reflected a growing realization that nanobody combinations can exploit distinct binding epitopes and leverage the intrinsic plasticity of the conformational landscape for the SARS-CoV-2 S protein to produce efficient neutralizing and mutation resistant characteristics. Structural …

Team Coordination Dynamics Of Winning Nba Teams, Alli Grunkemeyer, Joel H. Sommerfeld

UNO Student Research and Creative Activity Fair

Predicting sports games outcomes is an endless pursuit shared by stakeholders ranging from fans to coaches to data scientists. We have begun investigating the value of positional data recorded during basketball gameplay with the goal of predicting outcomes from team dynamics as they emerge. We approached this problem by analyzing the “shape” of team movements on the court and investigated whether team dynamics in NBA games mimicked long-range correlated patterns observed in other team contexts. We analyzed 622 NBA games from an archival data set, including all area time series obtained for each of the four quarters. We fit a …

Design And Development Of Software With A Graphical User Interface To Display And Convert Multiple Microscopic Histology Images, Sayed Ahmadreza Razian, Majid Jadidi, Alexey Kamenskiy

UNO Student Research and Creative Activity Fair

Histological images are widely used to assess the microscopic anatomy of biological tissues. Recent advancements in image analysis allow the identification of structural features on histological sections that can help advance medical device development, brain and cancer research, drug discovery, vascular mechanobiology, and many other fields. Histological slide scanners create images in SVS and TIFF formats that were designed to archive image blocks and high-resolution textual information. Because these formats were primarily intended for storage, they are often not compatible with conventional image analysis software and require conversion before they can be used in research. We have developed a user-friendly …

Ingredient Classification Using Food Ontology, Ricky Flores

UNO Student Research and Creative Activity Fair

A food label provides some of the most crucial information for a food product. The food label is a key resource for many health-conscious consumers for understanding ingredients. It is also vital for individuals to avoid food allergens or help patients follow dietary recommendations. While the food labels in the United States are regulated by the Food and Drug Administration (FDA) many labels contain additional information or statements that are not regulated. Moreover, the food label may be complex or contain terminology that the layperson may not understand. Evidence has indicated that consumers often find nutrition labels confusing, especially when …

Cellular Dna Effects Of Radiation And Cancer Risk Assessment In Cells With Mitochondrial Defects, J. Chen, D. M. Sridharan, C. L. Cross, J. M. Pluth

Epidemiology & Biostatistics Faculty Research

Mitochondria play a key role in mediating non-targeted effects (NTE) post-radiation exposure. Mitochondrial DNA (mtDNA), due to its less efficient repair as compared to nuclear DNA, is more severely affected by radiation exposure and mutations in essential mtDNA genes can further exacerbate oxidative stress. Our objective was to evaluate the impact of mitochondrial defects on radiation-induced DDR and genomic instability, biomarkers that can foreshadow cancer development. To better understand this relationship, we used commercially available lymphoblastoid cell lines containing characterized mitochondrial mutations and studied the kinetics of DNA damage and relative telomere length (RTL) changes over time post 0.5 Gy …

Sars-Cov-2 Rna Abundance In Wastewater As A Function Of Distinct Urban Sewershed Size., Rochelle H. Holm, Anish Mukherjee, Jayesh P. Rai, Ray A. Yeager, Daymond Talley, Shesh N. Rai, Aruni Bhatnagar, Ted Smith

Faculty and Staff Scholarship

During the COVID-19 pandemic, wastewater-based epidemiology has emerged as a promising approach for monitoring SARS-CoV-2 prevalence on a community-level. Despite much being known about the utility of making these measurements in large wastewater treatment plants, little is known about the correlation with finer geographic resolution, such as those obtained through sewershed sub-area catchments. This study aims to identify community wastewater surveillance characteristics between sewershed areas that affect the strength of the association of SARS-CoV-2 RNA detection in a metropolitan area. For this, wastewater from 17 sewershed areas were sampled in Louisville/Jefferson County, Kentucky (USA), from August 2020 to April 2021 …

A Novel Text Mining Approach For Mental Health Prediction Using Bi-Lstm And Bert Model, Kamil Zeberga, Muhammad Attique, Babar Shah, Farman Ali, Yalew Zelalem Jembre, Tae-Sun Chung

All Works

With the current advancement in the Internet, there has been a growing demand for building intelligent and smart systems that can efficiently address the detection of health-related problems on social media, such as the detection of depression and anxiety. These types of systems, which are mainly dependent on machine learning techniques, must be able to deal with obtaining the semantic and syntactic meaning of texts posted by users on social media. The data generated by users on social media contains unstructured and unpredictable content. Several systems based on machine learning and social media platforms have recently been introduced to identify …

Kemar Hats Head Orientation Directivity, Samuel D. Bellows, Timothy W. Leishman

Directivity

This directivity data set for a KEMAR head head-and-torso simulator (HATS) includes head orientations in 14 directions in 5° steps starting from 0° to 40° and then in 10° steps from 40° to 90°. The full spherical measurements followed at an a = 0.97 m radius with the mouth aperture at the spherical center. The sampling density and distribution followed the AES 5° dual-equiangular sampling standard, omitting the south pole (θ = 180°). Thus, each spherical directivity assessment included 36 polar-angle θ samples and 72 azimuthal-angle ϕ samples. The presented data include 22 1/3-octave bands, ranging from 80 Hz …

Natural Phaeosphaeride A Derivatives Overcome Drug Resistance Of Tumor Cells And Modulate Signaling Pathways, Victoria Abzianidze, Natalia Moiseeva, Diana Suponina, Sofya Zakharenkova, Nadezhda Rogovskaya, Lidia Laletina, Alvin A. Holder, Denis Krivorotov, Alexander Bogachenkov, Alexander Garabadzhiu, Anton Ukolov, Vyacheslav Kosorukov

Chemistry & Biochemistry Faculty Publications

n the present study, natural phaeosphaeride A (PPA) derivatives are synthesized. Anti-tumor studies are carried out on the PC3, K562, HCT-116, THP-1, MCF-7, A549, NCI-H929, Jurkat, and RPMI8226 tumor cell lines, and on the human embryonic kidney (HEK293) cell line. All the compounds synthesized turned out to have better efficacy than PPA towards the tumor cell lines listed. Among them, three compounds exhibited an ability to overcome the drug resistance of tumor cells associated with the overexpression of the P-glycoprotein by modulating the work of this transporter. Luminex xMAP technology was used to assess the effect of five synthesized compounds …

4,6-O-Phenylethylidene Acetal Protected D-Glucosamine Carbamate-Based Gelators And Their Applications For Multi-Component Gels, Pooja Sharma, Guijun Wang

Chemistry & Biochemistry Faculty Publications

The self-assembly of carbohydrate-based low molecular weight gelators has led to useful advanced soft materials. The interactions of the gelators with various cations and anions are important in creating novel molecular architectures and expanding the scope of the small molecular gelators. In this study, a series of thirteen new C-2 carbamates of the 4,6-O-phenylethylidene acetalprotected D-glucosamine derivatives has been synthesized and characterized. These compounds are rationally designed from a common sugar template. All carbamates synthesized were found to be efficient gelators and three compounds are also hydrogelators. The resulting gels were characterized using optical microscopy, atomic force microscopy, …

The Clock Modulator Nobiletin Mitigates Astrogliosis-Associated Neuroinflammation And Disease Hallmarks In An Alzheimer’S Disease Model, Marvin Wirianto, Chih-Yen Wang, Eunju Kim, Nobuya Koike, Ruben Gomez-Gutierrez, Kazunari Nohara, Gabriel Escobedo, Jong Min Choi, Chorong Han, Kazuhiro Yagita, Sung Yun Jung, Claudio Soto, Hyun Kyoung Lee, Rodrigo Morales, Seung-Hee Yoo, Zheng Chen

Faculty, Staff and Student Publications

Alzheimer's disease (AD) is a devastating neurodegenerative disorder, and there is a pressing need to identify disease-modifying factors and devise interventional strategies. The circadian clock, our intrinsic biological timer, orchestrates various cellular and physiological processes including gene expression, sleep, and neuroinflammation; conversely, circadian dysfunctions are closely associated with and/or contribute to AD hallmarks. We previously reported that the natural compound Nobiletin (NOB) is a clock-enhancing modulator that promotes physiological health and healthy aging. In the current study, we treated the double transgenic AD model mice, APP/PS1, with NOB-containing diets. NOB significantly alleviated β-amyloid burden in both the hippocampus and the …

Use Of The Deep Learning Approach To Measure Alveolar Bone Level, Chun-Teh Lee, Tanjida Kabir, Jiman Nelson, Sally Sheng, Hsiu-Wan Meng, Thomas E Van Dyke, Muhammad F Walji, Xiaoqian Jiang, Shayan Shams

Faculty, Staff and Student Publications

AIM: The goal was to use a deep convolutional neural network to measure the radiographic alveolar bone level to aid periodontal diagnosis.

MATERIALS AND METHODS: A deep learning (DL) model was developed by integrating three segmentation networks (bone area, tooth, cemento-enamel junction) and image analysis to measure the radiographic bone level and assign radiographic bone loss (RBL) stages. The percentage of RBL was calculated to determine the stage of RBL for each tooth. A provisional periodontal diagnosis was assigned using the 2018 periodontitis classification. RBL percentage, staging, and presumptive diagnosis were compared with the measurements and diagnoses made by the …

Counterfactual Analysis Of Differential Comorbidity Risk Factors In Alzheimer’S Disease And Related Dementias, Yejin Kim, Kai Zhang, Sean I Savitz, Luyao Chen, Paul E Schulz, Xiaoqian Jiang

Faculty, Staff and Student Publications

Alzheimer’s disease and related dementias (ADRD) is a multifactorial disease that involves several different etiologic mechanisms with various comorbidities. There is also significant heterogeneity in the prevalence of ADRD across diverse demographics groups. Association studies on such heterogeneous comorbidity risk factors are limited in their ability to determine causation. We aim to compare counterfactual treatment effects of various comorbidity in ADRD in different racial groups (African Americans and Caucasians). We used 138,026 ADRD and 1:1 matched older adults without ADRD from nationwide electronic health records, which extensively cover a large population’s long medical history in breadth. We matched African Americans …

Riding The Wave: Reactive Vector-Borne Disease Policy Renders The United States Vulnerable To Outbreaks And Insecticide Resistance, Kyndall C. Dye-Braumuller, Jennifer R. Gordon, Kaci Mccoy, Danielle Johnson, Rhoel Dinglasan, Melissa Nolan Ph.D., Mph

Faculty Publications

Funding for vector-borne disease surveillance, management, and research is cyclical and reactive in the United States. The subsequent effects have yielded gross inequities nationally that unintentionally support recurrent outbreaks. This policy forum is comprised of four primary subsections that collectively identify specific areas for improvement and offer innovative solutions to address national inadequacies in vector borne disease policy and infrastructure.

High Definition Tdcs Effect On Postural Control In Healthy Individuals: Entropy Analysis Of A Crossover Clinical Trial, Diandra B. Favoretto, Eduardo Bergonzoni, Diego Carvalho Nascimento, Francisco Louzada, Tenysson W. Lemos, Rosangela A. Batistela, Renato Moraes, João P. Leite, Brunna P. Rimoli, Dylan J. Edwards, Taiza G.S. Edwards

Research outputs 2022 to 2026

Objective: Converging evidence supporting an effect of transcranial direct current stimulation (tDCS) on postural control and human verticality perception highlights this strategy as promising for post-stroke rehabilitation. We have previously demonstrated polarity-dependent effects of high-definition tDCS (HD-tDCS) on weight-bearing asymmetry. However, there is no investigation regarding the time-course of effects on postural control induced by HD-tDCS protocols. Thus, we performed a nonlinear time series analysis focusing on the entropy of the ground reaction force as a secondary investigation of our randomized, double-blind, placebo-controlled, crossover clinical trial. Materials and Methods: Twenty healthy right-handed young adults received the following conditions (random order, …

Perceptions Of Drinking Water Access And Quality In Rural Indigenous Villages In Fiji, Sarah Nelson, Jacqueline Thomas, Aaron Jenkins, Kelera Naivalu, Timoci Naivalulevu, Vilisi Naivalulevu, Kinikoto Mailautoka, Shylett Anthony, Mereia Ravoka, Stacy D. Jupiter, Sangeeta Mangubhai, Pierre Horwitz, Seye Abimbola, Joel Negin

Research outputs 2022 to 2026

Poor rural water quality is a health challenge in Fiji. A mixed-methods study in six iTaukei (Indigenous Fijian) villages was conducted to understand local perceptions of drinking water access and quality, how this changes drinking water source choices, and impacts of age and gender. Seventy-two household surveys, 30 key informant interviews (KIIs) and 12 focus group discus-sions (FGDs) were conducted. Household surveys revealed 41.7% of community members perceived their water as dirty and 76.4% perceived their water as clean. Two-thirds of households reported that they always or usually had enough water. FGDs and KIIs revealed water access and quality was …

Wifitrace: Network-Based Contact Tracing For Infectious Diseases Using Passive Wifi Sensing, Amee Trivedi, Camellia Zakaria, Rajesh Krishna Balan, Ann Becker, George Corey, Prashant Shenoy

Research Collection School Of Computing and Information Systems

Contact tracing is a well-established and effective approach for the containment of the spread of infectious diseases. While Bluetooth-based contact tracing method using phones has become popular recently, these approaches suffer from the need for a critical mass adoption to be effective. In this paper, we present WiFiTrace, a network-centric approach for contact tracing that relies on passive WiFi sensing with no client-side involvement. Our approach exploits WiFi network logs gathered by enterprise networks for performance and security monitoring, and utilizes them for reconstructing device trajectories for contact tracing. Our approach is specifically designed to enhance the efficacy of traditional …

Institute For Global Health And Development : Issue 2 - March 2022, Institute For Global Health And Development

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Viral Pneumonia Screening On Chest X-Rays Using Confidence-Aware Anomaly Detection, Jianpeng Zhang, Yutong Xie, Guansong Pang, Zhibin Liao, Johan Verjans, Wenxing Li, Zongji Sun, Jian He, Yi Li, Chunhua Shen, Yong Xia

Research Collection School Of Computing and Information Systems

Clusters of viral pneumonia occurrences over a short period may be a harbinger of an outbreak or pandemic. Rapid and accurate detection of viral pneumonia using chest X-rays can be of significant value for large-scale screening and epidemic prevention, particularly when other more sophisticated imaging modalities are not readily accessible. However, the emergence of novel mutated viruses causes a substantial dataset shift, which can greatly limit the performance of classification-based approaches. In this paper, we formulate the task of differentiating viral pneumonia from non-viral pneumonia and healthy controls into a one-class classification-based anomaly detection problem. We therefore propose the confidence-aware …

Exploring And Evaluating The Impact Of Covid-19 On Mobility Changes In Singapore, Aldy Gunawan, Linh Chi Tran, Kar Way Tan, I-Lin Wang

Research Collection School Of Computing and Information Systems

This paper analyzes the changes in mobility trends due to the impact of the COVID-19 pandemic in Singapore in the six different sectors: Retail and Recreation, Grocery and Pharmacy, Parks, Transit Stations, Workplaces and Residential. The period of observation is from 15 February 2020 to 18 August 2021. The observed patterns obtained from the descriptive data analysis sheds light on the effectiveness of social distancing measures in Singapore as well as the level of compliance among the country’s residents. Correlation analysis is used to explore the relationship between different sectors during the pandemic period. The results reveal a strong sense …

Advancing Ubiquitous Collaboration For Telehealth - A Framework To Evaluate Technology-Mediated Collaborative Workflow For Telehealth, Hypertension Exam Workflow Study, Christopher Bondy Ph.D., Linlin Chen Ph.D, Pamela Grover Md, Pengcheng Shi Ph.D

Articles

Healthcare systems are under siege globally regarding technology adoption; the recent pandemic has only magnified the issues. Providers and patients alike look to new enabling technologies to establish real-time connectivity and capability for a growing range of remote telehealth solutions. The migration to new technology is not as seamless as clinicians and patients would like since the new workflows pose new responsibilities and barriers to adoption across the telehealth ecosystem. Technology-mediated workflows (integrated software and personal medical devices) are increasingly important in patient-centered healthcare; software-intense systems will become integral in prescribed treatment plans [1]. My research explored the path to …

The Estimation Of Excess Mortality During The Covid-19 Pandemic In Jakarta, Indonesia, Madona Yunita Wijaya

Kesmas

Indonesia is among the countries affected by the coronavirus disease 2019 (COVID-19) pandemic, and DKI Jakarta Province recorded the highest number of deaths. This study aimed to analyze the excess mortality across five administrative cities in Jakarta stratified by gender to assess the pandemic impact on mortality. The monthly mortality data from January 2018 to December 2020 was obtained through government sources. This data helped to measure excess mortality by estimating the baseline mortality had the COVID-19 pandemic not occurred. The analysis used a linear mixed model because of its ease and flexibility in forecasting subject-specific mortality. The results showed …