Medicine and Health Sciences Commons^™

Integrating Conformational Dynamics And Perturbation-Based Network Modeling For Mutational Profiling Of Binding And Allostery In The Sars-Cov-2 Spike Variant Complexes With Antibodies: Balancing Local And Global Determinants Of Mutational Escape Mechanisms, Gennady M. Verkhivker, Steve Agajanian, Ryan Kassab, Keerthi Krishnan

Mathematics, Physics, and Computer Science Faculty Articles and Research

n this study, we combined all-atom MD simulations, the ensemble-based mutational scanning of protein stability and binding, and perturbation-based network profiling of allosteric interactions in the SARS-CoV-2 spike complexes with a panel of cross-reactive and ultra-potent single antibodies (B1-182.1 and A23-58.1) as well as antibody combinations (A19-61.1/B1-182.1 and A19-46.1/B1-182.1). Using this approach, we quantify the local and global effects of mutations in the complexes, identify protein stability centers, characterize binding energy hotspots, and predict the allosteric control points of long-range interactions and communications. Conformational dynamics and distance fluctuation analysis revealed the antibody-specific signatures of protein stability and flexibility of the …

Seasonal Climatic Niche And Migration Movements Of Double-Crested Cormorants, D. Tommy King, Guiming Wang, Fred L. Cunningham

United States Department of Agriculture Wildlife Services: Staff Publications

Avian migrants are challenged by seasonal adverse climatic conditions and energetic costs of long-distance flying. Migratory birds may track or switch seasonal climatic niche between the breeding and non-breeding grounds. Satellite tracking enables avian ecologists to investigate seasonal climatic niche and circannual movement patterns of migratory birds. The Double-crested Cormorant (Nannopterum auritum, hereafter cormorant) wintering in the Gulf of Mexico (GOM) migrates to the Northern Great Plains and Great Lakes and is of economic importance because of its impacts on aquaculture. We tested the climatic niche switching hypothesis that cormorants would switch climatic niche between summer and winter …

Aligning The American Health Information Management Association Entry-Level Curricula Competencies And Career Map With Industry Job Postings: Cross-Sectional Study, Susan H Fenton, David T Marc, Angela Kennedy, Debra Hamada, Robert Hoyt, Karima Lalani, Connie Renda, Rebecca B Reynolds

Faculty, Staff and Student Publications

BACKGROUND: The field of health information management (HIM) focuses on the protection and management of health information from a variety of sources. The American Health Information Management Association (AHIMA) Council for Excellence in Education (CEE) determines the needed skills and competencies for this field. AHIMA's HIM curricula competencies are divided into several domains among the associate, undergraduate, and graduate levels. Moreover, AHIMA's career map displays career paths for HIM professionals. What is not known is whether these competencies and the career map align with industry demands.

OBJECTIVE: The primary aim of this study is to analyze HIM job postings on …

A Comparative Study On Deep Learning Models For Text Classification Of Unstructured Medical Notes With Various Levels Of Class Imbalance, Hongxia Lu, Louis Ehwerhemuepha, Cyril Rakovski

Mathematics, Physics, and Computer Science Faculty Articles and Research

Background

Discharge medical notes written by physicians contain important information about the health condition of patients. Many deep learning algorithms have been successfully applied to extract important information from unstructured medical notes data that can entail subsequent actionable results in the medical domain. This study aims to explore the model performance of various deep learning algorithms in text classification tasks on medical notes with respect to different disease class imbalance scenarios.

Methods

In this study, we employed seven artificial intelligence models, a CNN (Convolutional Neural Network), a Transformer encoder, a pretrained BERT (Bidirectional Encoder Representations from Transformers), and four typical …

Santa Clara Magazine, Volume 63 Number 1, Summer 2022, Santa Clara University

Santa Clara Magazine

16 - SHARED DREAMS Meet incoming University President Julie Sullivan, the first layperson and woman selected to lead SCU. Leslie Griffy

20 - BD KNOWS BEST Discovering who you really are, being grateful, and dinosaurs with BD Wong. Lauren Loftus.

22 - SWEPT AWAY Being homeless in Silicon Valley is particularly deadly. One professor explores why so many die in a land of such excess. Leslie Griffy .

28 - ON THE OUTSIDE A first-person account of being wrongly convicted, as told by Arturo Jimenez.

30 - BOOKED AND BUSY The secret behind the Hollywood success of so many Bronco …

The Prevalence And Impact Of Adolescent Hospitalization To Adult Psychiatric Units., Samantha Mcrae, Jordan Edwards, Kathy N Speechley, Javeed Sukhera, Guangyong Zou, Kelly K. Anderson

Epidemiology and Biostatistics Publications

BACKGROUND: With increasing psychiatric hospitalizations among adolescents and constrained hospital resources, there are times when youth are hospitalized in adult inpatient psychiatry units. Evidence on the prevalence of this practice and associated impacts is lacking.

AIMS: We sought to explore the prevalence, determinants, and outcomes related to the hospitalization of adolescents aged 12-17 years on adult inpatient psychiatry units in Ontario.

METHODS: Using health administrative data, we constructed a cohort of adolescents with an inpatient psychiatric admission in Ontario (2007-2011). We classified adolescents as having an admission to an adult psychiatry unit or to other inpatient units. Multivariable regression models …

Assessment Of Electronic Health Record For Cancer Research And Patient Care Through A Scoping Review Of Cancer Natural Language Processing, Liwei Wang, Sunyang Fu, Andrew Wen, Xiaoyang Ruan, Huan He, Sijia Liu, Sungrim Moon, Michelle Mai, Irbaz B Riaz, Nan Wang, Ping Yang, Hua Xu, Jeremy L Warner, Hongfang Liu

Faculty, Staff and Student Publications

Purpose: The advancement of natural language processing (NLP) has promoted the use of detailed textual data in electronic health records (EHRs) to support cancer research and to facilitate patient care. In this review, we aim to assess EHR for cancer research and patient care by using the Minimal Common Oncology Data Elements (mCODE), which is a community-driven effort to define a minimal set of data elements for cancer research and practice. Specifically, we aim to assess the alignment of NLP-extracted data elements with mCODE and review existing NLP methodologies for extracting said data elements.

Methods: Published literature studies were searched …

Comparative Susceptibility Of Eastern Cottontails And New Zealand White Rabbits To Classical Rabbit Haemorrhagic Disease Virus (Rhdv) And Rhdv2, Fawzi Mohamed, Thomas Gidlewski, Mary L. Berninger, Heather M. Petrowski, Alexa J. Bracht, Carla Bravo De Rueda, Roger W. Barrette, Meredith Grady, Emily S. O'Hearn, Charles E. Lewis, Karen E. Moran, Tracy L. Sturgill, Lorenzo Capucci, J. Jeffrey Root

United States Department of Agriculture Wildlife Services: Staff Publications

Rabbit haemorrhagic disease virus (RHDV) is associated with high morbidity and mortality in the European rabbit (Oryctolagus cuniculus). In 2010, a genetically distinct RHDV named RHDV2 emerged in Europe and spread to many other regions, including North America in 2016. Prior to this study it was unknown if eastern cottontails (ECT(s); Sylvilagus floridanus), one of the most common wild lagomorphs in the United States, were susceptible to RHDV2. In this study, 10 wild-caught ECTs and 10 New Zealand white rabbits (NZWR(s); O. cuniculus) were each inoculated orally with either RHDV (RHDVa/GI.1a; n = 5 per species) or RHDV2 (a recombinant …

Solar Radiation And Soil Moisture Drive Tropical Forest Understory Responses To Experimental And Natural Hurricanes, J. Aaron Hogan, Joanne M. Sharpe, Ashley Van Beusekom, Sarah Stankavich, Samuel Matta Carmona, John E. Bithorn, Jamarys Torres-Díaz, Grizelle González, Jess K. Zimmerman, Aaron B. Shiels

United States Department of Agriculture Wildlife Services: Staff Publications

Tropical forest understory regeneration occurs rapidly after disturbance with compositional trajectories that depend on species availability and environmental conditions. To predict future tropical forest regeneration dynamics, we need a deeper understanding of how pulse disturbance events, like hurricanes, interact with environmental variability to affect understory demography and composition. We examined fern and sapling mortality, recruitment, and community composition in relation to solar radiation and soil moisture using 17 years of forest dynamics data (2003–2019) from the Canopy Trimming Experiment in the Luquillo Experimental Forest, Puerto Rico. Solar radiation increased 150% and soil moisture increased 40% following canopy trimming of experimental …

A Low-Cost Virtual Coach For 2d Video-Based Compensation Assessment Of Upper Extremity Rehabilitation Exercises, Ana Rita Coias, Min Hun Lee, Alexandre Bernardino

Research Collection School Of Computing and Information Systems

Background: The increasing demands concerning stroke rehabilitation and in-home exercise promotion grew the need for affordable and accessible assistive systems to promote patients' compliance in therapy. These assistive systems require quantitative methods to assess patients' quality of movement and provide feedback on their performance. However, state-of-the-art quantitative assessment approaches require expensive motion-capture devices, which might be a barrier to the development of low-cost systems.Methods: In this work, we develop a low-cost virtual coach (VC) that requires only a laptop with a webcam to monitor three upper extremity rehabilitation exercises and provide real-time visual and audio feedback on compensatory motion patterns …

Institute For Global Health And Development : Issue 4 - July - Sept 2022, Institute For Global Health And Development

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Classification Of Twitter Vaping Discourse Using Bertweet: Comparative Deep Learning Study, William Baker, Jason B. Colditz, Page D. Dobbs, Huy Mai, Shyam Visweswaran, Justin Zhan, Brian A. Primack

Computer Science and Computer Engineering Faculty Publications and Presentations

Background:

Twitter provides a valuable platform for the surveillance and monitoring of public health topics; however, manually categorizing large quantities of Twitter data is labor intensive and presents barriers to identify major trends and sentiments. Additionally, while machine and deep learning approaches have been proposed with high accuracy, they require large, annotated data sets. Public pretrained deep learning classification models, such as BERTweet, produce higher-quality models while using smaller annotated training sets.

Objective:

This study aims to derive and evaluate a pretrained deep learning model based on BERTweet that can identify tweets relevant to vaping, tweets (related to vaping) of …

Quality And Transparency, Christopher J. Smiley Dds

The Journal of the Michigan Dental Association

In a recent JDR Clinical & Translational Research report, the American Dental Association's clinical practice guidelines (CPGs) were determined to offer high-quality guidance for the dental profession. The study employed the AGREE II tool to validate the ADA's guidelines’ methodological rigor and transparency, ensuring their quality. This external review is promising for the profession, as it indicates that the ADA has developed reliable CPGs that support advocacy and implementation. However, the article raises questions about consumer-targeted quality scores for dentist providers, such as DentaQual by P&R Dental Strategies LLC. It suggests that for such scoring systems to be credible, they …

Table Of Contents

Journal of the South Carolina Academy of Science

No abstract provided.

Jatropha Tanjorensis A Flora Of Southeast Nigeria: Isolation And Characterization Of Naringenin And Validation Of Bio-Enhanced Synergistical Activity Of Α- Tocopherol Toward Clinical Isolates Of Resistant Bacterial, Ikechukwu Kingsley Ijoma, Vincent Ishmael Egbulefu Ajiwe

Makara Journal of Science

Jatropha tanjorensis is among the rich floras of Southeast Nigeria and used by ethnic people to treat infections and manage health conditions. Ethnomedicine has long been employed in the treatment of ailments caused by bacterial pathogens. Studies showed that the incorporation of synthetic α-tocopherol to an antibacterial agent improves its activity. However, knowledge about the antibacterial-enhanced activity of plant-based α-tocopherols, especially those isolated from Jatropha tanjorensis, is limited because of the different bioactivities of synthetic and natural α-tocopherols. To determine the phytochemicals in J. tanjorensis, we carried out the structural elucidation of its leaf extracts. Naringenin and α-tocopherol …

Development Of Enhanced Food Packaging Systems Based On Blends Of Bio-Based And Biodegradable Polymers Exhibiting Antimicrobial Properties, Aishat Agboluaje

Theses and Dissertations

Food packaging is one of the important aspects of food processing, which contributes greatly to decreasing post-harvest food losses. While ensuring that foods are adequately packaged, it is also important to consider the impact of these food packaging materials on the environment. Accordingly, this research work was aimed at investigating the potential of bio-based and biodegradable blends of polyvinyl alcohol (PVA) and chitosan loaded with antimicrobial agents such as turmeric, clove, and cinnamon for use in food packaging applications. The methodology involved creating PVA/chitosan films with varying compositions via solvent casting method and selecting the best composition exhibiting the highest …

Association Between The Dietary Inflammatory Index And Gastric Disease Risk: Findings From A Korean Population-Based Cohort Study, Sundara Raj Sreeja, Trong-Dat Le, Bang Wool Eom, Seung Hyun Oh, Nitin Shivappa Mbbs, Mph, Ph.D., James R. Hébert Scd, Mi Kyung Kim

Faculty Publications

Evidence suggests that diets with high pro-inflammatory potential may play a substantial role in the origin of gastric inflammation. This study aimed to examine the association between the energy-adjusted dietary inflammatory index (E-DIITM) and gastric diseases at baseline and after a mean follow-up of 7.4 years in a Korean population. A total of 144,196 participants from the Korean Genome and Epidemiology Study_Health Examination (KoGES_HEXA) cohort were included. E-DII scores were computed using a validated semi-quantitative food frequency questionnaire. Multivariate logistic regression and Cox proportional hazards regression were used to assess the association between the E-DII and gastric disease risk. In …

Rainbow Perfect And Near-Perfect Matchings In Complete Graphs With Edges Colored By Circular Distance, Shuhei Saitoh, Naoki Matsumoto, Wei Wu

Theory & Applications of Graphs

Given an edge-colored complete graph K_n on n vertices, a perfect (respectively, near-perfect) matching M in K_n with an even (respectively, odd) number of vertices is rainbow if all edges have distinct colors. In this paper, we consider an edge coloring of K_n by circular distance, and we denote the resulting complete graph by K^●_n. We show that when K^●_n has an even number of vertices, it contains a rainbow perfect matching if and only if n=8k or n=8k+2, where k is a nonnegative integer. In the case of an odd …

Student Self-Grading Form, Brett Whysel

Open Educational Resources

This is a word document that students use at the beginning, midpoint, and end of a semester to set relevant goals, measure progress towards goals, and self-grade. It is intended to build motivation, metacognition, and accountability. Instructors may use it on its own or to supplement other assessment tools, and improve the accuracy, validity, and fairness of final grades.

Assessing The Reidentification Risks Posed By Deep Learning Algorithms Applied To Ecg Data, Arin Ghazarian, Jianwei Zheng, Daniele Struppa, Cyril Rakovski

Mathematics, Physics, and Computer Science Faculty Articles and Research

ECG (Electrocardiogram) data analysis is one of the most widely used and important tools in cardiology diagnostics. In recent years the development of advanced deep learning techniques and GPU hardware have made it possible to train neural network models that attain exceptionally high levels of accuracy in complex tasks such as heart disease diagnoses and treatments. We investigate the use of ECGs as biometrics in human identification systems by implementing state-of-the-art deep learning models. We train convolutional neural network models on approximately 81k patients from the US, Germany and China. Currently, this is the largest research project on ECG identification. …

Adolescent Health Risk Behaviors, Adverse Experiences, And Self-Reported Hunger: Analysis Of 10 States From The 2019 Youth Risk Behavior Surveys, Kathryn L. Krupsky, Sarah Silwa, Hilary Seligman, Andrea D. Brown, Angela D. Liese Ph.D., Zewditu Demissie, Ellen Barnidge

Faculty Publications

We examined associations between adolescent self-reported hunger, health risk behaviors, and adverse experiences during the 2018–2019 school year. Youth Risk Behavior Survey data were pooled from 10 states. Prevalence ratios were calculated, and we assessed effect measure modification by sex. The prevalence of self-reported hunger was 13%. Self-reported hunger was associated with a higher prevalence of every health risk behavior/adverse experience analyzed, even after adjusting for sex, grade, and race/ethnicity. Sex did not modify associations. Findings underscore needs for longitudinal research with more robust measures of adolescent food insecurity to clarify the temporality of relationships.

Nonparametric Estimation Of Transition Probabilities In Illness-Death Model Based On Ranked Set Sampling, Ying Ma

USF Tampa Graduate Theses and Dissertations

The ranked set sampling (RSS) design is applied widely in agriculture, environmental science, and medical research where the exact measurements of sampling units is costly, but sampling units can be ranked by a correlated concomitant variable. RSS is usually a cost-efficient alternate to simple random sampling (SRS) for selecting more representative samples. This study presents a novel methodology to investigate the nonparametric estimation of transition probabilities in illness-death model using the RSS design. We study the Aalen–Johansen estimator of transition probabilities in illness-death Markov model based on RSS design under random right censoring time and propose nonparametric estimators of the …

Enhancing Vanadium Redox Battery Performance Using Tungsten-Bismuth-Based Oxide Nanostructures As Electrode Modifiers, Taher Al Najjar

Theses and Dissertations

Renewable energy power plants require high efficiency conversion and storage systems that can store high amounts of energy and can be integrated with the electrical grid. Vanadium redox flow batteries are very promising for this application. However, one major drawback of VRFBs is their low power density which means that right now they cannot replace non-renewable energy sources. Different carbon materials are used as electrodes in VRFBs and each carbon material affects the battery’s performance in a different way. Modification of these electrodes can increase the power density of the battery. Some metal oxides like tungsten oxide can enhance vanadium …

A Simplified Model For The Intermediate Structure Of Strong Fire Whirls, Forman A. Williams

Progress in Scale Modeling, an International Journal

A model is described for the overall structure of intense fire whirls, based on a spatially evolving vortex, with circulation enhancement driven by the axial acceleration of low-density gas in the core through the axial pressure gradient. The axial acceleration increases the entrainment rate into the core which, through mass conservation, increases the circulation if the angle between the tangential and radial velocity components remains fixed. The two-zone model employs general balance equations for regions inside and outside a cylinder of fixed radius, each inviscid, the inside region being presumed to have a constant density small compared with the (constant) …

Managing Risk And Knowledge: Frameworks To Guide Knowledge-Enabled Technology Transfer, Martin Lipa Dr, Anne Greene

Level 3

Technology transfer is not only about the transfer of technology, but also about the transfer of knowledge, as evidenced by definitions of KM within the biopharma industry and beyond. However, knowledge transfer is often not well structured and its effectiveness – in particular for tacit knowledge (i.e., know how) – is an opportunity for improvement which can lead to many benefits. This article profiles recent research into the topic of improving knowledge transfer during technology transfer and presents several recently developed frameworks for improving such. The article furthermore explains how the frameworks can be co-deployed in support of robust knowledge …

Steps Towards Digital Transformation In The Pharmaceutical Manufacturing Landscape Knowledge-Enabled Technology Transfer, Anne Greene Professor, Martin Lipa Dr

Level 3

No abstract provided.

Stereocontrolled Access To Δ-Lactone-Fused-Γ-Lactams Bearing Angular Benzylic Quaternary Stereocenters, Timothy K. Beng, Morgan J. Rodriguez, Claire Borg

All Faculty Scholarship for the College of the Sciences

C-fused γ-lactam-lactones are resident in several bioactive molecules, including anticancer agents such as omuralide. In this embodiment, we report mild conditions for the catalytic halolactonization of lactam-tethered 5-aryl-4(E)-pentenoic acids. The use of dichloromethane as the solvent and Ph₃PS as the catalyst led to predominant 6-endo-trig cyclization and furnished the trans-fused-γ-lactam-δ-lactones. The transformation is modular, regioselective, chemoselective, and diastereoselective. The γ-lactam-δ-lactones bear angular quaternary benzylic stereocenters, which is noteworthy since the presence of a quaternary carbon in bioactive small molecules often promotes an element of conformational restriction that imparts potency, selectivity, and metabolic stability. The …

Emerging Technologies: Empowering People To Capture, Share And Transfer Tacit Knowledge, Donncadh J. Nagle, Melanie J. Adams

Level 3

ICH Q10 was published in 2008, and presented a model for an effective Pharmaceutical Quality System (PQS). However, the industry still has some way to go in embracing and implementing its principles in order to achieve greater product realisation, to establish and maintain a state of control, and to facilitate continual improvement.

ICH Q10 introduced us to two key enablers: Knowledge Management (KM) and Quality Risk Management (QRM).^[1] While the pharmaceutical industry has made progress in implementing the principles of QRM since 2008, there has been significantly slower progress in implementing knowledge management practices. However, there may be solutions …

Factors Associated With Covid-19 Vaccine Intentions Among South Carolina Residents, Mufaro Kanyangarara, Lauren Mcabee, Virginie G. Daguise, Melissa Nolan Ph.D., Mph

Faculty Publications

Despite evidence of vaccine safety and efficacy, vaccine hesitancy remains a major global health threat. The COVID-19 vaccine has presented unique vaccine hesitancy concerns compared to parental vaccine hesitancy towards childhood vaccines. South Carolina (SC) is home to a largely conservative population and historically has some of the lowest vaccination coverage rates in the United States of America. The goal of the current study was to identify factors associated with COVID-19 vaccine intentions among SC residents. From November 2020 to September 2021, 300,000 invitations to participate in community testing and complete an online survey were mailed to randomly selected SC …

The Short-Term Effects Of Fine Airborne Particulate Matter And Climate On Covid-19 Disease Dynamics, El Hussain Shamsa, Kezhong Zhang

Medical Student Research Symposium

Background: Despite more than 60% of the United States population being fully vaccinated, COVID-19 cases continue to spike in a temporal pattern. These patterns in COVID-19 incidence and mortality may be linked to short-term changes in environmental factors.

Methods: Nationwide, county-wise measurements for COVID-19 cases and deaths, fine-airborne particulate matter (PM_2.5), and maximum temperature were obtained from March 20, 2020 to March 20, 2021. Multivariate Linear Regression was used to analyze the association between environmental factors and COVID-19 incidence and mortality rates in each season. Negative Binomial Regression was used to analyze daily fluctuations of COVID-19 cases …