Physical Sciences and Mathematics Commons^™

Knowledge Network Embedding Of Transcriptomic Data From Spaceflown Mice Uncovers Signs And Symptoms Associated With Terrestrial Diseases, Amber M. Paul, Charlotte A. Nelson, Ana Uriarte Acuna, Ryan T. Scott, Atul J. Butte, Egle Cekanaviciute, Sergio E. Baranzini

Publications

There has long been an interest in understanding how the hazards from spaceflight may trigger or exacerbate human diseases. With the goal of advancing our knowledge on physiological changes during space travel, NASA GeneLab provides an open-source repository of multi-omics data from real and simulated spaceflight studies. Alone, this data enables identification of biological changes during spaceflight, but cannot infer how that may impact an astronaut at the phenotypic level. To bridge this gap, Scalable Precision Medicine Oriented Knowledge Engine (SPOKE), a heterogeneous knowledge graph connecting biological and clinical data from over 30 databases, was used in combination with GeneLab …

Integrated Profiling Identifies Itgb3bp As Prognostic Biomarker For Hepatocellular Carcinoma, Qiuli Liang, Chao Tan, Feifei Xiao, Fuqiang Yin, Meiliang Liu, Lei Lei, Liuyu Wu, Yu Yang, Jennifer Hui Juan Tan, Shun Liu, Xiaoyun Zeng

Faculty Publications

Hepatocellular carcinoma (HCC) is a highly malignant tumor. In this study, we sought to identify a novel biomarker for HCC by analyzing transcriptome and clinical data. The R software was used to analyze the differentially expressed genes (DEGs) in the datasets GSE74656 and GSE84598 downloaded from the Gene Expression Omnibus database, followed by a functional annotation. A total of 138 shared DEGs were screened from two datasets. They were mainly enriched in the “Metabolic pathways” pathway (Padj = 8.21E-08) and involved in the carboxylic acid metabolic process (Padj = 0.0004). The top 10 hub genes were found by protein-protein interaction …

Sars-Cov-2 Pandemic Analytical Overview With Machine Learning Predictability, Anthony Tanaydin, Jingchen Liang, Daniel W. Engels

SMU Data Science Review

Understanding diagnostic tests and examining important features of novel coronavirus (COVID-19) infection are essential steps for controlling the current pandemic of 2020. In this paper, we study the relationship between clinical diagnosis and analytical features of patient blood panels from the US, Mexico, and Brazil. Our analysis confirms that among adults, the risk of severe illness from COVID-19 increases with pre-existing conditions such as diabetes and immunosuppression. Although more than eight months into pandemic, more data have become available to indicate that more young adults were getting infected. In addition, we expand on the definition of COVID-19 test and discuss …

Covid-19 Pandemic In Brazil: Clinical Manifestation And Effect Of Comorbidities On Outcomes Of Hospitalized Sari Cases, Mario Keko, Karl E. Peace

Department of Biostatistics, Epidemiology, and Environmental Health Sciences Faculty Publications

Hospitalized SARI cases of 2020 reported to the Ministry of Health of Brazil through the SIVEP Gripe system are subject to our analysis. They are classified as COVID-19 and non-COVID-19 and clinical manifestations and comorbidities are reported for each group. The time trend in the number of cases reported in 2020 is compared to the previous year and the performance of the PCR test is explored in each group. The proportion of death is reported among different subgroups of the patients by epidemiological week. Logistic and Poisson regression models are used to check the effect of comorbidities on clinical outcomes.

Critical And Ictal Phases In Simulated Eeg Signals On A Small-World Network, Louis R. Nemzer, Gary D. Cravens, Robert M. Worth, Francis Motta, Andon Placzek, Victor Castro, Jennie Q. Lou

Chemistry and Physics Faculty Articles

Healthy brain function is marked by neuronal network dynamics at or near the critical phase, which separates regimes of instability and stasis. A failure to remain at this critical point can lead to neurological disorders such as epilepsy, which is associated with pathological synchronization of neuronal oscillations. Using full Hodgkin-Huxley (HH) simulations on a Small-World Network, we are able to generate synthetic electroencephalogram (EEG) signals with intervals corresponding to seizure (ictal) or non-seizure (interictal) states that can occur based on the hyperexcitability of the artificial neurons and the strength and topology of the synaptic connections between them. These interictal simulations …

Mitochondria Exert Age-Divergent Effects On Recovery From Spinal Cord Injury, Andrew N. Stewart, Katelyn E. Mcfarlane, Hemendra J. Vekaria, William M. Bailey, Stacey A. Slone, Lauren A. Tranthem, Bei Zhang, Samir P. Patel, Patrick G. Sullivan, John C. Gensel

Physiology Faculty Publications

The extent that age-dependent mitochondrial dysfunction drives neurodegeneration is not well understood. This study tested the hypothesis that mitochondria contribute to spinal cord injury (SCI)-induced neurodegeneration in an age-dependent manner by using 2,4-dinitrophenol (DNP) to uncouple electron transport, thereby increasing cellular respiration and reducing reactive oxygen species (ROS) production. We directly compared the effects of graded DNP doses in 4- and 14-month-old (MO) SCI-mice and found DNP to have increased efficacy in mitochondria isolated from 14-MO animals. In vivo, all DNP doses significantly exacerbated 4-MO SCI neurodegeneration coincident with worsened recovery. In contrast, low DNP doses (1.0-mg/kg/day) improved tissue …

Improving Evidence-Based Grouping Of Transitional Care Strategies In Hospital Implementation Using Statistical Tools And Expert Review, Jing Li, Gaixin Du, Jessica Miller Clouser, Arnold J. Stromberg, Glen Mays, Joann Sorra, Jane Brock, Terry Davis, Suzanne Mitchell, Huong Q. Nguyen, Mark V. Williams

Center for Health Services Research Faculty Publications

BACKGROUND: As health systems transition to value-based care, improving transitional care (TC) remains a priority. Hospitals implementing evidence-based TC models often adapt them to local contexts. However, limited research has evaluated which groups of TC strategies, or transitional care activities, commonly implemented by hospitals correspond with improved patient outcomes. In order to identify TC strategy groups for evaluation, we applied a data-driven approach informed by literature review and expert opinion.

METHODS: Based on a review of evidence-based TC models and the literature, focus groups with patients and family caregivers identifying what matters most to them during care transitions, and expert …

Modes Of Transmission Of Severe Acute Respiratory Syndrome-Coronavirus-2 (Sars-Cov-2) And Factors Influencing On The Airborne Transmission: A Review, Mahdieh Delikhoon, Marcelo I. Guzman, Ramin Nabizadeh, Abbas Norouzian Baghani

Chemistry Faculty Publications

The multiple modes of SARS-CoV-2 transmission including airborne, droplet, contact, and fecal–oral transmissions that cause coronavirus disease 2019 (COVID-19) contribute to a public threat to the lives of people worldwide. Herein, different databases are reviewed to evaluate modes of transmission of SARS-CoV-2 and study the effects of negative pressure ventilation, air conditioning system, and related protection approaches of this virus. Droplet transmission was commonly reported to occur in particles with diameter >5 µm that can quickly settle gravitationally on surfaces (1–2 m). Instead, fine and ultrafine particles (airborne transmission) can stay suspended for an extended period of time (≥2 h) …

Differential Modulation Of Sk Channel Subtypes By Phosphorylation, Young-Woo Nam, Dezhi Kong, Dong Wang, Razan Orfali, Rinzhin T. Sherpa, Jennifer Totonchy, Surya M. Nauli, Miao Zhang

Pharmacy Faculty Articles and Research

Small-conductance Ca²⁺-activated K⁺ (SK) channels are voltage-independent and are activated by Ca²⁺ binding to the calmodulin constitutively associated with the channels. Both the pore-forming subunits and the associated calmodulin are subject to phosphorylation. Here, we investigated the modulation of different SK channel subtypes by phosphorylation, using the cultured endothelial cells as a tool. We report that casein kinase 2 (CK2) negatively modulates the apparent Ca²⁺ sensitivity of SK1 and IK channel subtypes by more than 5-fold, whereas the apparent Ca²⁺ sensitivity of the SK3 and SK2 subtypes is only reduced by ∼2-fold, when heterologously …

Adverse Health Effects Of Kratom: An Analysis Of Social Media Data, Abdullah Wahbeh, Tareq Nasralah, Omar El-Gayar, Mohammad A. Al-Ramahi, Ahmed El Noshokaty

Computer Information Systems Faculty Publications

This study investigates the adverse healthcare effects associated with the use of kratom. Using machine learning techniques, we analyzed a total of 36,516 users’ posts related to kratom. The results and analysis showed that social media could help identify important insights related to the use of kratom. The sentiment and emotion analyses showed that the kratom experience was negative and largely associated with anger, fear, disgust, and sadness. The results from. topic modeling showed that kratom is associated with a number of healthcare issues such as rashes and itching, urination, constipation, loss of appetite/weight, dry mouth, seizures, nausea, heartburn, dehydration, …

Time-Varying Insomnia Symptoms And Incidence Of Cognitive Impairment And Dementia Among Older Us Adults, Nicholas V. Resciniti, Valerie Yelverton, Bezawit Eyob Kase, Jiajia Zhang, Matthew C. Lohman

Faculty Publications

There is conflicting evidence regarding the association between insomnia and the onset of mild cognitive impairment (MCI) or dementia. This study aimed to evaluate if time-varying insomnia is associated with the development of MCI and dementia. Data from the Health and Retirement Study (n = 13,833) from 2002 to 2014 were used (59.4% female). The Brief Insomnia Questionnaire was used to identify insomnia symptoms which were compiled in an insomnia severity index, ranging from 0 to 4. In analysis, participants’ symptoms could vary from wave-to-wave. Dementia was defined using results from the Health and Retirement Study (HRS) global cognitive …

Design And Synthesis Of Non-Xanthone Structural Analogs Of Α-Mangostin, Maryam Foroozmehr

Theses and Dissertations

α-Mangostin belongs to a class of polyphenolic compounds called xanthones. The potential pharmacological effects such as anti-bacterial and anti-cancer effects of α-mangostin have made it an important natural product for medicinal chemistry evaluation. During this thesis research, we have designed and synthesized a series of non-xanthone analogs of α-mangostin for medicinal chemistry evaluation. A commercially available starting material, methyl-4-methoxysalicylate was used to synthesize these non-xanthone analogs. The analogs were designed as more flexible derivatives compared to the tricyclic motif within α-mangostin yet retain the hydroxybenzoate scaffold. Through a one-pot chemical synthesis, with relatively high yield (70%), we prepared eight different …

Transcriptional Repressor Protein Based Macrolide Biosensor Development With Improved Sensitivity, Jayani A. Christopher

Graduate Research Posters

Macrolide antibiotics are in high demand for clinical applications. Macrolides are biosynthesized via giant assembly line polyketide synthases (PKS) which are arranged in a modular fashion. Combinatorial biosynthetic methods have been used to produce diversified macrolides by reprograming these modules and modifying tailoring enzymes required for post synthetic modifications. However it is challenging due to the size and complexity of PKSs. To overcome this challenge, new enzymes for macrolide diversification could be obtained by directed evolution where a large number of enzyme variants need to be screened. Therefore it is important to develop high throughput screening methods to identify the …

Modeling Longitudinal Change In Cervical Length Across Pregnancy, Hope M. Wolf, Shawn J. Latendresse, Jerome F. Strauss Iii, Timothy P. York

Graduate Research Posters

Introduction: A short cervix (cervical length < 25 mm) in the mid-trimester (18 to 24 weeks) of pregnancy is a powerful predictor of spontaneous preterm delivery (gestational age at delivery < 37 weeks). Although the biological mechanisms of cervical remodeling have been the subject of extensive investigation, very little is known about the rate of change in cervical length over the course of a pregnancy, or the extent to which rapid cervical shortening increases maternal risk for spontaneous preterm delivery.

Methods: A cohort of 5,160 unique women carrying 5,971 singleton pregnancies provided two or more measurements of cervical length during pregnancy. Cervical length was measured in millimeters using a transvaginal 12-3 MHz ultrasound endocavity probe (SuperSonic Imagine). Maternal characteristics, including relevant medical history and birth outcome data, were collected for each participant. Gestational age at delivery was measured from the first day of each woman’s last menstrual period and confirmed by ultrasound. Repeated measurements of cervical length during pregnancy were modeled as a longitudinal, multilevel growth curve in MPlus. A three-level variance structure was …

The U-Net-Based Active Learning Framework For Enhancing Cancer Immunotherapy, Vishwanshi Joshi

Theses, Dissertations and Capstones

Breast cancer is the most common cancer in the world. According to the U.S. Breast Cancer Statistics, about 281,000 new cases of invasive breast cancer are expected to be diagnosed in 2021 (Smith et al., 2019). The death rate of breast cancer is higher than any other cancer type. Early detection and treatment of breast cancer have been challenging over the last few decades. Meanwhile, deep learning algorithms using Convolutional Neural Networks to segment images have achieved considerable success in recent years. These algorithms have continued to assist in exploring the quantitative measurement of cancer cells in the tumor microenvironment. …

Biofilm And Cell Adhesion Strength On Dental Implant Surfaces Via The Laser Spallation Technique, James D. Boyd, Arnold J. Stromberg, Craig S. Miller, Martha E. Grady

Statistics Faculty Publications

OBJECTIVE: The aims of this study are to quantify the adhesion strength differential between an oral bacterial biofilm and an osteoblast-like cell monolayer to a dental implant-simulant surface and develop a metric that quantifies the biocompatible effect of implant surfaces on bacterial and cell adhesion.

METHODS: High-amplitude short-duration stress waves generated by laser pulse absorption are used to spall bacteria and cells from titanium substrates. By carefully controlling laser fluence and calibration of laser fluence with applied stress, the adhesion difference between Streptococcus mutans biofilms and MG 63 osteoblast-like cell monolayers on smooth and rough titanium substrates is obtained. The …

Thirty-Fourth Annual Symposium Of Trinity College Undergraduate Research, Trinity College, Hartford Connecticut

Science Symposia Abstracts

2021 annual volume of abstracts for science research projects conducted by students at Trinity College.

Meaningful Use Criteria And Staff Accountability In An Office Setting, Marcia Ionie Pender

Walden Dissertations and Doctoral Studies

Proper documentation for meaningful use (MU) criteria within electronic health records (EHRs) was identified as an issue for office staff at a local primary care office in a metropolitan area of Central Florida. The project question addressed the local gap in knowledge about MU standards necessary to ensure correct documentation of EHRs. The purpose of this doctoral project was to provide an educational program for staff to ensure compliance with the HITECH Act of 2009. Lewin’s Change Theory and Knowles Theory of Adult learning were the conceptual foundations for the educational program. The project question was to determine whether a …

Impact Of Case Management On Childhood Lead Exposure In Marion County, Indiana, Maliki Yacouba

Walden Dissertations and Doctoral Studies

The Centers for Disease Control and Prevention recently declared that no amount of childhood blood lead level (BLL) is safe. The purpose of this quantitative study with a retrospective cohort design was to evaluate the effectiveness of case management intervention on children diagnosed with elevated BLL (EBLL; ≥ 5 μg/dL) in Marion, County, Indiana. The health belief model was used as the theoretical foundation for the study. A data set of 160 lead exposure case management records was analyzed to find whether: (a) BLL at post-case-management time significantly differ from BLL at baseline (b) BLL at post-case-management time is affected …

Investigations Into The Genetics Of Mixed Pathologies In Dementia, Adam Dugan

Theses and Dissertations--Epidemiology and Biostatistics

Alzheimer’s disease (AD) is an irreversible, progressive brain disorder that leads to a loss of memory and thinking skills. While tremendous progress has been made in our understanding of the genetics underlying AD, currently known genetic variants explain only approximately 30% of the heritable risk of developing AD. One hurdle to AD research is that it can only be definitively diagnosed at autopsy, making cruder, clinic-based diagnoses more common. In recent years, several brain pathologies that mimic AD’s clinical presentation have been identified including brain arteriolosclerosis, hippocampal sclerosis (HS), and, most recently, limbic-predominant age-related TDP-43 encephalopathy (LATE). It has become …

Solutions For Fermi Questions, January 2022: Question 1: Snow Volume; Question 2: Longbow Arrow Velocity, Larry Weinstein

Physics Faculty Publications

No abstract provided.

Addressing The Ecological Fallacy With Lagrangian Inference, Michael Schwob

Calvert Undergraduate Research Awards

Most epidemiologists elect to use statistical models that use population-level data to make inference on the spread of some virus or disease. This has become commonplace in the fields of epidemiology and biostatistics since most data used to construct and verify epidemic models are recorded at the population-level. Obtaining inference from a population-level model may be beneficial in studying the spread of disease in a homogeneous population, but the use of such models to describe a heterogeneous population results in inadequate inference. The inaccuracy of these models is further amplified when one tries to make individual-level inference from these population-level …

The Risk Of Physical Multimorbidity In People With Psychotic Disorders: A Systematic Review And Meta-Analysis, Myanca Rodrigues, Joshua C. Wiener, Saverio Stranges, Bridget L. Ryan, Kelly K. Anderson

Epidemiology and Biostatistics Publications

Background: The occurrence of multiple co-occurring chronic health conditions, known as multimorbidity, is associated with decreases in quality of life for patients and poses unique challenges for healthcare systems. Since people with psychotic disorders have an excess of physical health conditions compared to the general population, they may also be at a higher risk for multimorbidity. We conducted a systematic review and meta-analysis to quantify the prevalence and excess risk of multimorbidity among people with psychotic disorders, relative to those without psychosis.

Methods: We searched the MEDLINE, EMBASE, and PsycINFO databases, and conducted forward and backward citation tracing of included …

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

Theses and Dissertations

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

Tolle Lege Works Published In 2021, Mcquade Library

Bibliographies

Compiled Tolle Lege bibliography of works published by members of the Merrimack College Community in 2021. Works include journal articles, books, book chapters, conference presentations and posters, and more.

Multi-Level Movement Response Of Invasive Wild Pigs (Sus Scrofa) To Removal, Guillaume Bastille-Rousseau, Peter E. Schlichting, David A. Keiter, Joshua B. Smith, John C. Kilgo, George Wittemyer, Kurt C. Vercauteren, James C. Beasley, Kim M. Pepin

United States Department of Agriculture Wildlife Services: Staff Publications

BACKGROUND: Lethal removal of invasive species, such as wild pigs (Sus scrofa), is often the most efficient approach for reducing their negative impacts. Wild pigs are one of the most widespread and destructive invasive mammals in the USA. Lethal management techniques are a key approach for wild pigs and can alter wild pig spatial behavior, but it is unclear how wild pigs respond to the most common removal technique, trapping.We investigated the spatial behavior of wild pigs following intensive removal of conspecifics via trapping at three sites within the Savannah River Site, SC, USA. We evaluated changes in …

Temporal And Spatial Blood Feeding Patterns Of Urban Mosquitoes In The San Juan Metropolitan Area, Puerto Rico, Matthew W. Hopken, Limarie J. Reyes-Torres, Nicole Scavo, Antoinette J. Piaggio, Zaid Abdo, Daniel Taylor, James Pierce, Donald A. Yee

United States Department of Agriculture Wildlife Services: Staff Publications

Simple Summary: Understanding the biodiversity of urban ecosystems is critical for management of invasive and pest species, conserving native species, and disease control. Mosquitoes (Culicidae) are ubiquitous and abundant in urban ecosystems, and rely on blood meals taken from vertebrates. We used DNA from freshly blood-fed mosquitoes to characterize the diversity of vertebrate host species in the San Juan Metropolitan Area, Puerto Rico. We collected two mosquito species that fed on a variety of vertebrates. Culex quinquefasciatus fed on 17 avian taxa (81.2% of blood meals), seven mammalian taxa (17.9%), and one reptilian taxon (0.85%). Aedes aegypti blood meals were …

Evaluating The Effects Of Mountain Beaver (Aplodontia Rufa) Management On Conifer Stocking In Western Oregon, Jimmy D. Taylor, Vanessa M. Petro

United States Department of Agriculture Wildlife Services: Staff Publications

Mountain beaver (Aplodontia rufa) is the most primitive rodent species in North America and is endemic to the Pacific Northwest, USA. Within their range, mountain beaver cause more conflict with conifer forest regeneration than any other vertebrate species. Most damage occurs as a result of clipping and browsing new seedlings, which reduces stocking density and delays stand development. An integrated approach using trapping and a registered toxicant (baiting) has been suggested as the most efficacious means to reduce seedling loss during stand initiation. We evaluated this management strategy in intensively managed conifer stands across two mountain ranges in …

Risk Factors For Foodborne Illness Outbreaks In Retail Food Establishments, Brendalee Viveiros

Walden Dissertations and Doctoral Studies

Despite policies and interventions over the last two decades, foodborne illness remains a significant public health concern. According to the CDC’s Foodborne Disease Outbreak Surveillance System, 60% of reported foodborne illness outbreaks involved food that was prepared at a restaurant. Reducing foodborne illness outbreaks that occur at restaurants would have a significant impact on the overall number of foodborne illnesses that occur each year. The purpose of this study was to quantitatively analyze the differences in risk factors in food establishments that have had a foodborne illness outbreak compared to food establishments that have not. This study used Reckwitz’s theory …

Medical Practitioners’ Intention To Use Secure Electronic Medical Records In Healthcare Organizations, Omar Enrique Sangurima

Walden Dissertations and Doctoral Studies

Medical practitioners have difficulty fully implementing secure electronic medical records (EMRs). Clinicians and medical technologists alike need to identify motivational factors behind secure EMR implementation to assure the safety of patient data. Grounded in the unified theory of acceptance and use of technology model, the purpose of this quantitative, correlational study was to examine the relationship between medical practitioners’ perceptions of performance expectancy, effort expectancy, social influence, facilitating conditions, and the intention to use secure EMRs in healthcare organizations. Survey data (N = 126) were collected from medical practitioners from the northeastern United States. The results of the multiple regression …