Digital Commons Network^™

Named Entity Recognition From Biomedical Text, Maged Guirguis

Theses and Dissertations

As vast amounts of unstructured data are becoming available digitally, computer-based methods to extract relevant and meaningful information are needed. Named entity recognition (NER) is the task of identifying text spans that mention named entities, and to classify them into predefined categories. Despite the existence of numerous and well-versed NER methods, the bio-medical domain remains under-studied. The objective of this research is to identify an efficient technique for NER tasks from biomedical data. This is achieved by investigating using deep learning technologies namely pre-trained BERT [1] model and its variances SciBERT [2] and BioBERT [3]. Preprocessing the data before passing …

Invisibility And Dis-Identification Of Algerian Women: Feminist Jurisprudence Eyes On The Legal Provisions Related To Personal Status And Criminal, Sophia Lina Meziane

Theses and Dissertations

Much of the debate around women’s rights in legal systems focuses on the increase of protection as a legal mechanism for approaching and guaranteeing gender equality. Yet, what extensive or comprehensive analysis has been done on how effective such laws are when applied? This thesis discusses the extent to which a feminist legal theory, separate and distinct from the patriarchal legal system, can demonstrate how an Islamic or Napoleonic order is conceptually another male rationality. While one could possibly identify inefficiencies of laws proclaiming equality and protection for women, the context of the question is inevitably entrenched in the very …

Relationships Among Health Promotion Behaviors, Patient Engagement, And The Nurse Practitioner-Patient Partnership, Irene Decelie

Seton Hall University Dissertations and Theses (ETDs)

Individuals adopting health promotion behaviors benefit from improved health and reduced risk of chronic diseases. Trends in health care include promoting patient engagement and the development of a partnership between clinicians and patients to improve health and
health outcomes. The purpose of this descriptive, correlational study was to examine the relationships between patient engagement, the nurse practitioner-patient partnership and health promotion behaviors among adults in the primary care setting. Pender’s health promotion model and the recently created interactive care model provided the theoretical framework for this study.
Convenience sampling was used to recruit 85 participants from a nurse practitioner primary …

Advancing Ionomer Design To Boost Interfacial And Thin-Film Proton Conductivity Via Styrene-Calix[4]Arene-Based Ionomers, Shyambo Chatterjee, Oghenetega Allen Obewhere, Ehsan Zamani, Rajesh Keloth, Seefat Farzin, Martha D. Morton, Anandakumar Sarella, Shudipto Konika Dishari

Department of Chemical and Biomolecular Engineering: Faculty Publications

Sub-micrometer-thick ion-conducting polymer (ionomer) layers often suffer from poor ionic conductivity at the substrate/catalyst interface. The weak proton conductivity makes the electrochemical reaction at the cathode of proton-exchange-membrane fuel cells sluggish. To address this, here we report on a class of polystyrene-based ionomers having sub-nanometer-sized, sulfonated macrocyclic calix[4]arene-based pendants (PS-calix). In films with thickness comparable to that of ionomer-based binder layers, the conductivity of PS-calix film (∼41 mS/cm) is ∼13 times higher than that of the current state-of-the-art ionomer, Nafion. We observe a similar improvement in proton conductivity when PS-calix interfaces with Pt nanoparticles, demonstrating the potential of PS-calix in …

A Marine Plastic Cloud - Global Mass Balance Assessment Of Oceanic Plastic Pollution, Peter T. Harris, Thomas Maes, Karen Raubenheimer, J. P. Walsh

Graduate School of Oceanography Faculty Publications

To improve our understanding and management of marine plastic pollution of the ocean, a total plastic budget is needed which quantifies the sources and sinks, as well as inputs and removal of plastic per unit time. The current state of knowledge indicates that the coastal zone and ocean water column are major locations for plastic pollution, but the fate of much of this must ultimately be the deep ocean floor. We reviewed 23 journal articles that provide 280 observations of deep-sea sediment microplastic concentration across six different off-shelf environments. We calculate the following mean concentrations of microplastic particles (number) per …

Combination Of Epha2- And Wee1-Targeted Therapies In Endometrial Cancer, Santosh K Dasari, Robiya Joseph, Sujanitha Umamaheswaran, Lingegowda S Mangala, Emine Bayraktar, Cristian Rodriguez-Aguayo, Yutuan Wu, Nghi Nguyen, Reid T Powell, Mary Sobieski, Yuan Liu, Mamur A Chowdhury, Paola Amero, Clifford Stephan, Gabriel Lopez-Berestein, Shannon N Westin, Anil K Sood

Faculty, Staff and Student Publications

EphA2 tyrosine kinase is upregulated in many cancers and correlated with poor survival of patients, including those with endometrial cancer. EphA2-targeted drugs have shown modest clinical benefit. To improve the therapeutic response to such drugs, we performed a high-throughput chemical screen to discover novel synergistic partners for EphA2-targeted therapeutics. Our screen identified the Wee1 kinase inhibitor, MK1775, as a synergistic partner to EphA2, and this finding was confirmed using both in vitro and in vivo experiments. We hypothesized that Wee1 inhibition would sensitize cells to EphA2-targeted therapy. Combination treatment decreased cell viability, induced apoptosis, and reduced clonogenic potential in endometrial …

Ush2a Mutation And Specific Driver Mutation Subtypes Are Associated With Clinical Efficacy Of Immune Checkpoint Inhibitors In Lung Cancer, Dexin Yang, Yuqin Feng, Haohua Lu, Kelie Chen, Jinming Xu, Peiwei Li, Tianru Wang, Dajing Xia, Yihua Wu

Faculty, Staff and Student Publications

This study aimed to identify subtypes of genomic variants associated with the efficacy of immune checkpoint inhibitors (ICIs) by conducting systematic literature search in electronic databases up to May 31, 2021. The main outcomes including overall survival (OS), progression-free survival (PFS), objective response rate (ORR), and durable clinical benefit (DCB) were correlated with tumor genomic features. A total of 1546 lung cancer patients with available genomic variation data were included from 14 studies. The Kirsten rat sarcoma viral oncogene homolog

Itch And Janus Kinase Inhibitors, Yujin Han, Yu Ri Woo, Sang Hyun Cho, Jeong Deuk Lee, Hei Sung Kim

Faculty, Staff and Student Publications

Itch is a common skin symptom, with complex aetiology and pathogenesis. It is mediated by 2 pathways, the histaminergic and non-histaminergic pathways. Chronic itch is understood to be processed by the latter and is difficult to treat with traditional pruritus therapies. The Janus kinase and signal transducer and activator of transcription pathway is a signalling mechanism that regulates gene expression through various cytokines. Janus kinase inhibitors, which have been tested and used for several autoimmune diseases, have also been shown to be effective for itch through clinical trials and case reports. Janus kinase inhibitors could be a good choice for …

Baseline Extracellular Vesicle Tgf-Β Is A Predictive Biomarker For Response To Immune Checkpoint Inhibitors And Survival In Non-Small Cell Lung Cancer, Diego De Miguel-Perez, Alessandro Russo, Muthukumar Gunasekaran, Francesco Buemi, Lisa Hester, Xiaoxuan Fan, Brandon A Carter-Cooper, Rena G Lapidus, Ariel Peleg, Marisol Arroyo-Hernández, Andres F Cardona, Aung Naing, Fred R Hirsch, Philip C Mack, Sunjay Kaushal, Maria Jose Serrano, Vincenzo Adamo, Oscar Arrieta, Christian Rolfo

Faculty, Staff and Student Publications

Background: Immune-checkpoint inhibitors (ICIs) are an effective therapeutic strategy, improving the survival of patients with lung cancer compared with conventional treatments. However, novel predictive biomarkers are needed to stratify which patients derive clinical benefit because the currently used and highly heterogenic histological PD-L1 has shown low accuracy. Liquid biopsy is the analysis of biomarkers in body fluids and represents a minimally invasive tool that can be used to monitor tumor evolution and treatment effects, potentially reducing biases associated with tumor heterogeneity associated with tissue biopsies. In this context, cytokines, such as transforming growth factor-β (TGF-β), can be found free in …

Neuroprotective Effects Of Green Tea (Camellia Sinensis) And Broccoli (Brassica Oleracea) Extracts In An In Vitro Model Of Multiple Sclerosis, Sara Taha Fathallah

Theses and Dissertations

Multiple Sclerosis (MS) is a neurodegenerative autoimmune disease in which the immune system attacks the central nervous system (CNS) resulting in demyelination. Currently, there is no specific treatment for MS. Here, we propose testing the neuroprotective potential of Green tea (Camellia sinensis), and Broccoli (Brassica oleracea) extracts in an in vitro model of multiple sclerosis.

Methods and Results: Green tea and Broccoli plant extracts were analyzed with GC-MS and tested for their neuroprotective effects in an in vitro MS model using Cuprizone (CPZ) on the Human neuroblastoma SH-SY5Y cell line. Cell viability assays proved the safety of the extracts …

Preparation And Characterization Of Salvia Triloba Extract And Evaluation Of Its Cytotoxic Effect On Bone Cancer Cell Line, Basma Hossam Abdelmonem

Theses and Dissertations

Background: Osteosarcoma is a tumor of mesenchymal origin characterized by uncontrolled production of immature osteoid tissue. It is more common in children and adults over the age of 65. Many studies reported the cytotoxic effect of many plant extracts, including Salvia triloba, on different cancer cell lines when used alone or in combination with other chemotherapeutic agents.

Methods: In our study, the methanolic extract obtained from the air-dried leaves of Salvia triloba leaves from Palestine was screened for its total phenolic and flavonoid contents. The major components of phenolics and flavonoids were detected using LC-QToF-MS technique. The two phenolics …

Sperm Dna Integrity In Absolute Teratozoospermia Patients And Its Impact On Assisted Reproductive Technology Outcome, Dina Faris

Theses and Dissertations

Sperm DNA Fragmentation (SDF) is a common cause of male infertility, although it is underdiagnosed due to lack of routine testing. High levels of SDF are reported in men with abnormal sperm morphology. However, the implications of such findings on live birth following Intracytoplasmic Sperm Injection (ICSI) have not been studied in absolute teratozoospermia men (100% abnormal sperm morphology). In this prospective study, the severity of DNA damage was evaluated in absolute teratozoospermia patients and its impact on ICSI outcomes, particularly live birth rate. My study included 36 men with absolute teratozoospermia and 30 men with normal sperm. Real-time assessment …

Human Gut Microbiota And Parkinson's Disease In An Egyptian Population, Sara Hashish

Theses and Dissertations

Multiple lines of evidence suggest the role of the gut microbiome in the predisposition and progression of Parkinson’s disease. This present cross-sectional study was performed to compare the composition of the gastrointestinal microbiota in patients with Parkinson's disease to their counterparts. Stringent inclusion criteria were followed to reliably identify our target population. Parkinson’s patients (n = 40) along with reference subjects (n = 39) were recruited from November 2021 to August 2022. Detailed demographic and clinical data were obtained at baseline using a set of questionnaires and clinical assessment tools. Fecal specimens were collected from all participants, and gut commensals …

Molecular Diagnosis Of Non X-Linked Ectodermal Dysplasias Using Next Generation Sequencing, Eman Abdelalim Rabie

Theses and Dissertations

Ectodermal Dysplasias (EDs) are rare heterogenous monogenic developmental disorders sharing the impairment of at least two surface ectoderm-derived organs. Symptoms characteristically manifest developmental abnormalities of the teeth, and three skin derivatives: hair follicles, nails, and sweat glands. The disease-causing gene was identified for only fewer than half of 160 characterized ED phenotypes. Expectedly, ED-causing genes regulate or function in ectodermal-developmental processes. The most common phenotype is hypohidrotic ED featuring teeth agenesis, and diminished or complete absence of hair and sweat production. Disease-causing variants of EDA, EDAR, EDARADD and WNT10A genes were identified in 60-90% of ED patients in …

Perceptions Of The Culinary Art Community On Their Higher Education Programs In Egypt: The Way Forward, Kadria Ali Abdel Motaal

Theses and Dissertations

Culinary art education used to have a narrow focus that forgoes its richness and ignores its infiltration into economic, political, and cultural aspects within society. Recently the world witnessed an evolution in this field of study as it reached tertiary education institutions. However, in Egypt, culinary art studies are integrated into hospitality education and are still confined to a shallow concept. This study aimed to explore the perception of the culinary art community in Egypt on their higher education programs from a sociocultural perspective. It also explored the possible new frameworks, and core competencies to improve culinary arts higher education …

Effective Organizational Change Management In The Public Sector: The Case Of The Egyptian Drug Authority, Amany Shehata Mahran

Theses and Dissertations

The thesis investigates the change management process in the public sector, with specific focus on a recent change process that took place in an Egyptian public organization as a case study, the Egyptian Drug Authority (EDA). The research aims to explore the change management process that took place after the issuance of the founding law of case under study, the EDA, to achieve the organizational goals and objectives, and provide recommendations for improvement. The study used a mixed methods approach to answer the overarching research question as well as the sub questions. The qualitative part of the research used interviews …

Vr-Based Safety Training Program For High-Rise Building Construction, Sahar Badr

Theses and Dissertations

The rates of fatal and non-fatal accidents within the construction industry across the globe are surging despite the massive efforts that are being exerted toward maintaining a safe working environment. Past research has proved that the provision of effective safety training programs is a primary course of action that should be taken to minimize construction accidents, fatalities, and both fatal and nonfatal injuries.

However, in acknowledging the limitations of traditional safety training programs within the construction industry, several researchers have addressed the urge to incorporate novel training practices that are based on the modern virtual reality (VR) technology to promote …

Enhancing Performance Of Gravity Driven Membranes For Water Purification In Small Rural Communities, Amr Ezzat Melligy Mr.

Theses and Dissertations

Due to the rapid population growth in Egypt, providing safe drinking water is becoming an ongoing challenge especially in rural scattered communities. It became more crucial than ever to find innovative and affordable solutions to purify water and reduce water-borne diseases. Ultrafiltration and micro-filtration membranes has been successful in large, centralized plants and is currently one of the popular solutions to provide high quality product water. However, using those membrane systems in rural areas is challenged by several parameters; among which are; the absence of skilled workers, stable energy sources and availability of chemicals. The goal of this thesis is …

Effects Of Date Seed (Phoenix Dactylifera) Extract In An Animal Model Of Diabetes Mellitus, Sara Refaat

Theses and Dissertations

Diabetes mellitus is a chronic illness and a global epidemic. The commercial diabetic medicines available are expensive and have several adverse effects. Alternative natural products are still being sought for. Date seeds ( Phoenix dactylifera) are either thrown away as garbage or utilized as animal feed. The use of seed extract as an alternative therapy for diabetes offers a cost-effective and all-natural method for managing the disease. Methods Sprague dawley rats were randomly distributed into groups with a sample size of 4 rats per group. Date seed powder was boiled producing a 10% date seed extract which was administered in …

Factors Affecting Consumers’ Purchase Intentions Towards Recycled Products, Sherine Esmat

Theses and Dissertations

The work executed addresses the status of recycling industry in Egypt and its relation to the current sustainability trends as well as climate change issues. It also identifies the main concerns of consumers when purchasing recycled products. Consequently, identifies the key pillars that need to be applied or communicated with the target consumers to enhance the concept of selling recycled products and increase its market share. Since this industry is significantly broad, the focus of the study was only on recycled PET plastic bottles (rPET), this is to ensure attaining accurate and reliable results.

An interview and a site visit …

On The Architecture Of Collaboration In Inter-Organizational Natural Resource Management Networks, Gordon M. Hickey, Evelyn Roozee, Remko Voogd, Jasper R. De Vries, Antonia Sohns, Dongkyu Kim, Owen Temby

School of Earth, Environmental, & Marine Sciences Faculty Publications

This paper reviews the architecture of collaboration that exists within inter-organizational natural resource management (NRM) networks. It presents an integrative conceptual framework designed to help operationalize the multi-level interactions that occur between different dimensions of trust, risk perception, and control as key concepts in inter-organizational collaboration. The objective is to identify and justify a series of propositions considered suitable for assessing inter-organizational NRM network collaboration through empirical work. Such an integrative conceptualization goes beyond the existing trust scholarship related to collaborative NRM, and, we argue, offers a useful starting point for further exploring some of the ‘inner’ social dynamics affecting …

February 15, 2023, Faculty, Illinois Wesleyan University

2022-2023

No abstract provided.

Blood Transcriptome Responses To Pfoa And Genx Treatment In The Marsupial Biomedical Model Monodelphis Domestica, Wenqi Cao, Katharine Horzmann, Bettina Schemera, Myra Petrofski, Trisha Kendall, Jennifer Spooner, Patricia E. Rynders, John Vandeberg, Xu Wang

School of Medicine Publications

Introduction: Perfluoroalkyl and poly-fluoroalkyl substances (PFASs) are widely used in industrial and consumer products. Due to their environmental persistence and bioaccumulation, PFASs can be found in the blood of humans and wild animals all over the world. Various fluorinated alternatives such as GenX have been developed to replace the long-chain PFASs, but there is limited information about their potential toxicity.

Methods:The current study developed blood culture protocols to assess the response to toxic compounds in the marsupial, Monodelphis domestica. After whole-blood culture conditions were tested and optimized, changes in gene expression in response to PFOA and GenX treatment …

Disruption Of The Atxn1-Cic Complex Reveals The Role Of Additional Nuclear Atxn1 Interactors In Spinocerebellar Ataxia Type 1, Stephanie L Coffin, Mark A Durham, Larissa Nitschke, Eder Xhako, Amanda M Brown, Jean-Pierre Revelli, Esmeralda Villavicencio Gonzalez, Tao Lin, Hillary P Handler, Yanwan Dai, Alexander J Trostle, Ying-Wooi Wan, Zhandong Liu, Roy V Sillitoe, Harry T Orr, Huda Y Zoghbi

Faculty, Staff and Students Publications

Spinocerebellar ataxia type 1 (SCA1) is a paradigmatic neurodegenerative disease in that it is caused by a mutation in a broadly expressed protein, ATXN1; however, only select populations of cells degenerate. The interaction of polyglutamine-expanded ATXN1 with the transcriptional repressor CIC drives cerebellar Purkinje cell pathogenesis; however, the importance of this interaction in other vulnerable cells remains unknown. Here, we mutated the 154Q knockin allele of Atxn1154Q/2Q mice to prevent the ATXN1-CIC interaction globally. This normalized genome-wide CIC binding; however, it only partially corrected transcriptional and behavioral phenotypes, suggesting the involvement of additional factors in disease pathogenesis. Using unbiased …

Newsroom, Georgia Southern University

Newsroom (2006-2023)

National Institute of Health Awards Georgia Southern University $426,000 to Study Tumor Formation

Elevated Estuary Water Temperature Drives Fish Gut Dysbiosis And Increased Loads Of Pathogenic Vibrionaceae, Alessandra L. Suzzi, Michael Stat, Troy F. Gaston, Nachshon Siboni, Nathan L. R. Williams, Justin R. Seymour, Megan J. Huggett

Research outputs 2022 to 2026

Marine water temperatures are increasing globally, with eastern Australian estuaries warming faster than predicted. There is growing evidence that this rapid warming of coastal waters is increasing the abundance and virulence of pathogenic members of the Vibrionaceae, posing a significant health risk to both humans and aquatic organisms. Fish disease, notably outbreaks of emerging pathogens in response to environmental perturbations such as heatwaves, have been recognised in aquaculture settings. Considerably less is known about how rising sea surface temperatures will impact the microbiology of wild fish populations, particularly those within estuarine systems that are more vulnerable to warming. We used …

2023-02-15 College Dating Culture: Are Dating Apps Ruining Romance?, Chloe Platt

The Spectator Online

No abstract provided.

Timing And Magnitude Of Drought Impacts On Carbon Uptake Across A Grassland Biome, Andrew Felton, Gregory R. Goldsmith

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Although drought is known to negatively impact grassland functioning, the timing and magnitude of these impacts within a growing season remains unresolved. Previous small-scale assessments indicate grasslands may only respond to drought during narrow periods within a year; however, large-scale assessments are now needed to uncover the general patterns and determinants of this timing. We combined remote sensing datasets of gross primary productivity and weather to assess the timing and magnitude of grassland responses to drought at 5 km² temporal resolution across two expansive ecoregions of the western US Great Plains biome: the C₄-dominated shortgrass steppe and …

Evolutionary Couplings And Molecular Dynamic Simulations Highlight Details Of Gpcrs Heterodimers’ Interfaces, Karim Widad T Nchourupouo, Jules Nde, Yannick Joel Wadop Ngouongo, Serge Sylvain Zekeng, Bernard Fongang

School of Medicine Publications

A growing body of evidence suggests that only a few amino acids (“hot-spots”) at the interface contribute most of the binding energy in transient protein-protein interactions. However, experimental protocols to identify these hot-spots are highly labor-intensive and expensive. Computational methods, including evolutionary couplings, have been proposed to predict the hot-spots, but they generally fail to provide details of the interacting amino acids. Here we showed that unbiased evolutionary methods followed by biased molecular dynamic simulations could achieve this goal and reveal critical elements of protein complexes. We applied the methodology to selected G-protein coupled receptors (GPCRs), known for their therapeutic …

Svep1 Is An Endogenous Ligand For The Orphan Receptor Pear1, Jared S Elenbaas, Upasana Pudupakkam, Katrina J Ashworth, Chul Joo Kang, Ved Patel, Katherine Santana, In-Hyuk Jung, Paul C Lee, Kendall H Burks, Junedh M Amrute, Robert P Mecham, Carmen M Halabi, Arturo Aliso, Jorge Di Paola, Nathan O Stitziel

2020-Current year OA Pubs

Sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 (SVEP1) is an extracellular matrix protein that causally promotes vascular disease and associates with platelet reactivity in humans. Here, using a human genomic and proteomic approach, we identify a high affinity, disease-relevant, and potentially targetable interaction between SVEP1 and the orphan receptor Platelet and Endothelial Aggregation Receptor 1 (PEAR1). This interaction promotes PEAR1 phosphorylation and disease associated AKT/mTOR signaling in vascular cells and platelets. Mice lacking SVEP1 have reduced platelet activation, and exogenous SVEP1 induces PEAR1-dependent activation of platelets. SVEP1 and PEAR1 causally and concordantly relate to platelet …