Digital Commons Network^™

Transdisciplinary Doctoral Training To Address Global Sustainability Challenges, Zoie Taylor Diana, John Virdin, Michelle B. Nowlin, Nishad Jayasundara, Daniel Rittschof

Faculty Scholarship

No abstract provided.

Sharing Pathogen Sequence Data For Global Scientific Research Under The Nagoya Protocol To The Convention On Biological Diversity, Jerome H. Reichman, Carolina Dos S. Ribeiro, George B. Haringhuizen, Paul F. Uhlir

Faculty Scholarship

The Nagoya Protocol to the Convention on Biological Diversity (CBD) has threatened to impede access to genetic resources and related data for cross-border scientific research. In principle, every use of genetic resources would require a set of contracts under the CBD, in a “bilateral” regime. The related transaction costs could overwhelm many transnational research undertakings, affecting even public health responses to outbreaks and epidemics. However, the Nagoya Protocol also offers a unique opportunity to resolve this dilemma, despite struggles to define the meaning and coverage of “digital sequence information.” The coverage of genetic sequence data under the CBD remains controversial …

Clinical Utility Of Plasma Microbial Cell-Free Dna Sequencing In Determining Microbiologic Etiology Of Infectious Syndromes In Solid Organ Transplant Recipients, Jesal R Shah, Muhammad Rizwan Sohail, Todd Lasco, John A Goss, Mayar Al Mohajer, Sarwat Khalil

Faculty, Staff and Students Publications

BACKGROUND: Metagenomic next-generation sequencing (mNGS) is increasingly being used for microbial detection in various infectious syndromes. However, data regarding the use of mNGS in solid organ transplant recipients (SOTR) are lacking.

OBJECTIVES: To describe and analyze real-world clinical impact of mNGS using plasma microbial cell-free DNA (mcfDNA) in SOTR.Design: Retrospectively reviewed all adult SOTR who underwent mNGS testing using plasma mcfDNA at Baylor St Luke's Medical Center from March 2017 to February 2023.

METHODS: Clinical impact (positive, neutral, and negative) was assessed using standardized objective criteria. Three Infectious Diseases physicians independently performed clinical adjudication to determine the correlation of mcfDNA …

Clinical Utility Of Metagenomic Next-Generation Sequencing In Fever Of Undetermined Origin, Marilyne Daher, Roumen Iordanov, Mayar Al Mohajer, M Rizwan Sohail, Kristen Andrews Staggers, Ahmed Mufeed Hamdi

Faculty, Staff and Students Publications

BACKGROUND: Metagenomic next-generation sequencing (mNGS) is a novel diagnostic tool increasingly used in the field of infectious diseases. Little guidance is available regarding its appropriate use in different patient populations and clinical syndromes. We aimed to review the clinical utility of mNGS in patients with a specific clinical syndrome and identify factors that may increase its utility.

METHODS: We retrospectively reviewed charts of 72 non-immunocompromised adults hospitalized with the clinical syndrome of 'fever of undetermined origin' and underwent mNGS testing. Standardized criteria from a previously published study were used to determine the clinical impact of mNGS testing. We applied logistic …

Detection Of Invasive Bartonella Infections With Next-Generation Sequencing Of Microbial Cell-Free Dna, Fernando H Centeno, Ahmed M Hamdi, Todd M Lasco, Mayar Al Mohajer

Faculty, Staff and Students Publications

We report 9 patients with invasive Bartonella infections, including 5 with endocarditis, who were diagnosed with microbial cell-free DNA next-generation sequencing and Bartonella serology studies. Diagnosis with plasma mcfDNA NGS enabled a faster clinical and laboratory diagnosis in 8 patients. Prompt diagnosis impacted antibiotic management in all 9 patients.

Creating A Plasma Coordination Center To Support Covid-19 Outpatient Trials Across A National Network Of Hospital Blood Banks, Anusha Yarava, Christi Marshall, David E Reichert, Aaron Ye, Preeti Khanal, Sanford H Robbins, Bruce S Sachais, David Oh, Ryan A Metcalf, Kathleen Conry-Cantilena, Karen King, Meredith Reyes, Jill Adamski, Marisa B Marques, Minh-Ha Tran, Elizabeth S Allen, Daniel Pach, Neil Blumberg, Rhonda Hobbs, Tammon Nash, Aarthi G Shenoy, Giselle S Mosnaim, Yuriko Fukuta, Bela Patel, Sonya L Heath, Adam C Levine, Barry R Meisenberg, Shweta Anjan, Moises A Huaman, Janis E Blair, Judith S Currier, James H Paxton, William Rausch, Kevin Oei, Matthew Abinante, Donald N Forthal, Martin S Zand, Seble G Kassaye, Edward R Cachay, Kelly A Gebo, Shmuel Shoham, Arturo Casadevall, Nichol A Mcbee, Daniel Amirault, Ying Wang, Erica Hopkins, David M Shade, Oliver Layendecker, Sabra L Klein, Han-Sol Park, John S Lee, Patrizio Caturegli, Jay S Raval, Daniel Cruser, Alyssa F Ziman, Jonathan Gerber, Thomas J Gniadek, Evan M Bloch, Aaron A R Tobian, Daniel F Hanley, David J Sullivan, Karen Lane

Faculty, Staff and Students Publications

INTRODUCTION: In response to the COVID-19 pandemic, we rapidly implemented a plasma coordination center, within two months, to support transfusion for two outpatient randomized controlled trials. The center design was based on an investigational drug services model and a Food and Drug Administration-compliant database to manage blood product inventory and trial safety.

METHODS: A core investigational team adapted a cloud-based platform to randomize patient assignments and track inventory distribution of control plasma and high-titer COVID-19 convalescent plasma of different blood groups from 29 donor collection centers directly to blood banks serving 26 transfusion sites.

RESULTS: We performed 1,351 transfusions in …

A Transcriptomic Biomarker Predicting Linezolid-Associated Neuropathy During Treatment Of Drug-Resistant Tuberculosis, Nika Zielinski, Dragos Baiceanu, Antonela Dragomir, Jan Heyckendorf, Elmira Ibraim, Niklas Köhler, Christoph Leschczyk, Cristina Popa, Andrea Rachow, Jens Sachsenweger, Patricia Sanchez Carballo, Dagmar Schaub, Hajo Zeeb, Begna Tulu, Andrew R Dinardo, Christoph Lange, Maja Reimann

Faculty, Staff and Students Publications

BACKGROUND: Neuropathic adverse events occur frequently in linezolid-containing regimens, some of which remain irreversible after drug discontinuation.

OBJECTIVE: We aimed to identify and validate a host RNA-based biomarker that can predict linezolid-associated neuropathy before multidrug-resistant/rifampicin-resistant tuberculosis (MDR/RR-TB) treatment initiation and to identify genes and pathways that are associated with linezolid-associated neuropathy.

METHODS: Adult patients initiating MDR/RR-TB treatment including linezolid were prospectively enrolled in 3 independent cohorts in Germany. Clinical data and whole blood RNA for transcriptomic analysis were collected. The primary outcome was linezolid-associated optic and/or peripheral neuropathy. A random forest algorithm was used for biomarker identification. The biomarker was …

A Novel System To Culture Human Intestinal Organoids Under Physiological Oxygen Content To Study Microbial-Host Interaction, Tatiana Y Fofanova, Umesh C Karandikar, Jennifer M Auchtung, Reid L Wilson, Antonio J Valentin, Robert A Britton, K Jane Grande-Allen, Mary K Estes, Kristi Hoffman, Sashirekha Ramani, Christopher J Stewart, Joseph F Petrosino

Faculty, Staff and Students Publications

Mechanistic investigation of host-microbe interactions in the human gut are hindered by difficulty of co-culturing microbes with intestinal epithelial cells. On one hand the gut bacteria are a mix of facultative, aerotolerant or obligate anaerobes, while the intestinal epithelium requires oxygen for growth and function. Thus, a coculture system that can recreate these contrasting oxygen requirements is critical step towards our understanding microbial-host interactions in the human gut. Here, we demonstrate Intestinal Organoid Physoxic Coculture (IOPC) system, a simple and cost-effective method for coculturing anaerobic intestinal bacteria with human intestinal organoids (HIOs). Using commensal anaerobes with varying degrees of oxygen …

Divergent Responses Of Human Intestinal Organoid Monolayers Using Commercial In Vitro Cytotoxicity Assays, Miranda A Lewis, Ketki Patil, Khalil Ettayebi, Mary K Estes, Robert L Atmar, Sasirekha Ramani

Faculty, Staff and Students Publications

In vitro models, such as primary cells and continuous cell lines routinely used for evaluating drug candidates, have limitations in their translational relevance to human diseases. Organotypic cultures are increasingly being used to assess therapeutics for various cancers and infectious diseases. Monitoring drug cytotoxicity in cell cultures is crucial in drug development, and several commercially available kits for cytotoxicity assessment offer distinct advantages and limitations. Given the complexity of organoid cultures, including donor-driven variability, we investigated drug-treated, tissue stem cell-derived human intestinal organoid responses with commonly used cell cytotoxicity assay kits. Using seven different compounds, we compared the cytotoxicity assay …

Bridging The Gap: Assessing Cmv Dnaemia In Kidney Transplant Recipients With Previous Solid Organ Transplants, Goni Katz-Greenberg, Julie M Steinbrink, Krishna Shah, Jennifer S Byrns

Faculty, Staff and Students Publications

Cytomegalovirus (CMV) infection poses a significant threat to solid organ transplant (SOT) recipients and can lead to various complications and adverse outcomes. In an effort to prevent CMV infection, it is common to utilize prophylactic strategies, including antiviral medications such as valganciclovir, especially for high-risk patients. Risk factors for CMV infection in kidney transplant recipients (KTRs) include CMV mismatch between donor and recipient (i.e., donor positive, recipient negative), and intensity of immunosuppression, such as the use of T-cell depleting agents. However, little attention has been given to KTRs with a history of prior SOTs, despite their prolonged exposure to immunosuppressive …

Risk Factors Of Glioma In Non-Hispanic White And Hispanic Children In California, Lixin Kang

Public Health Theses

Purpose: This study aimed to evaluate the risk of pediatric glioma in relation to multiple birth and parental characteristics as well as environmental exposures, in the overall California population and in racial and ethnic subgroups.

Methods: Leveraging a population-based linkage of statewide birth records and cancer registry data in California, we conducted a case-control study that included 3,244 cases who were born in California during 1982-2015 and diagnosed with first primary glioma at the age of 0-19 years during 1988-2015, and 162,200 controls who were born in California and frequency-matched to cases on year of birth. Odds ratios (OR) and …

How Marital Stress May Affect The Onset Of Dementia In Older Adults, Khunza Asma

All Graduate Theses, Dissertations, and Other Capstone Projects

Marital stress has been identified as a significant factor influencing the cognitive health of older adults, with emerging evidence suggesting a potential link between marital discord and the risk of developing dementia. This study will review the existing literature on the relationship between chronic stress, depression, marital discord, and the development of cognitive impairment which can increase the risk of developing dementia in older adults. However, the purpose of studying how marital stress affects the onset of dementia is to deepen our understanding of the complex interplay between psychosocial factors and cognitive health in older adults, with the ultimate goal …

Integrative Machine Learning Approaches For Enhanced Classification Of Genomic Sequences: A Next-Generation Sequencing Perspective, Sujatha Alla, Nagesh Bheesetty, Sai Gireesh Komaragiri, Prasanthi Chidipudi, Joshit Mohanty, Sathish Kumar Chintala, Jubin Thomas, Jayapal Vummadi, Hemanth Volikatla, Navin Kamuni

Engineering Management & Systems Engineering Faculty Publications

The advent of Next-Generation Sequencing (NGS) techniques has revolutionized genomic research by enabling the rapid sequencing of DNA and RNA. This data can be used for various applications, including genome sequencing, transcriptome profiling, metagenomics, and epigenetics studies. For this study, DNA classifier dataset was extracted from UCI repository of machine learning databases. This vast amount of genomic data necessitates the development of sophisticated machine learning (ML) models for effective classification and analysis. This study presents a comprehensive comparison of various ML models, including Support Vector Machines (SVM), Random Forests (RF), and Neural Networks (NNs), approaches, in classifying genomic data. We …

Food Allergies, The Immune Response, And Preventative Treatments: Milk, Egg, And Shellfish Allergies, Marissa Dimatteo

Undergraduate Honors Theses

Food allergies have been an increasing concern worldwide with very little information on preventative measures and treatment. They can have long lasting and life-threatening consequences with a wide range of symptoms from hives to anaphylactic shock. Long recommended feeding guidelines, vitamin and mineral deficiencies, and gastrointestinal alterations are thought to play a role in the increase in food allergies in infants. Early introduction of food, immunotherapy, and a properly supported gut microbiome have been recommended to decrease the likelihood of developing a food allergy and desensitizing the immune system.

Community Science Informs Movement And Reproductive Ecology Of Sand Tigers Carcharias Taurus Off North Carolina, United States Of America, Carol Seals Price, Ara Lupton Mcclanahan, Erin J. Burge, Tanya Houppermans, Jason Holmberg

Marine Science

Sand tigers are frequently observed at shipwrecks and other artificial reef habitats off North Carolina (USA), but data about occupancy, movement ecology, and site fidelity are lacking. Spot A Shark USA researchers used Wildbook^© photoidentification software to spot map sand tigers in images provided by recreational SCUBA divers, or collected from remotely operated vehicles, and an offshore live-streaming camera. We uniquely identified 1837 sand tigers, 101 of which were resighted on more than one date between 2005–2021. Sand tigers of both sexes and various ages were found year-round along the northern, central and southern coast. We identified shipwrecks or …

A “War” Over Lobster And Whales: The Issue-Attention Cycle, Media Discourse, And Political Ecology Of Right Whale Science And Conservation In Six Us Newspapers, Marcus Reamer, Catherine Macdonald, Julia Wester, Russell Fielding, Meryl Shriver-Rice

Honors College Faculty Publications

News organizations and journalists are important and influential actors in environmental politics. Their reporting on social and environmental issues often follows issue-attention cycles (IACs) that emphasize drama and problematization to maintain public interest. This study examined nearly 13 years of news coverage to understand the media discourse about the Critically Endangered North Atlantic right whale (NARW) and its conservation. Content analysis and critical discourse analysis were used to analyze 356 texts published in six large US newspapers between January 1, 2010 and March 15, 2023. NARW conservation and management received increased public attention and an IAC began in 2017 after …

Incorporating Traditional Ecological Knowledge In Integrated Science In Junior Secondary School Curriculum, Charles Oando Opole

Master of Education

Indigenous knowledge, developed over generations through direct interaction with the environment, offers unique perspectives on ecological systems, resource management, and sustainable practices. Integrating this rich knowledge into the science curriculum acknowledges traditional knowledge's cultural diversity and relevance, fostering a more comprehensive understanding of scientific phenomena, and encouraging collaboration between diverse knowledge systems. This study sought to explore incorporating traditional ecological knowledge (TEK) into the integrated science curriculum in junior secondary schools in Kenya, focusing on the Mbita sub-county, Homabay County. Utilizing a qualitative approach and a case study design, the study was conducted in five junior secondary schools. The findings …

Assessing School Self-Evaluation For Enhancing Academic Achievement: A Case Of Selected Secondary Schools In Mara Region, Tanzania, Wambura Mhoni

Master of Education

This study investigates the practices and impact of School Self-Evaluation/Internal School Quality Assurance (SSE/ISQA) on academic achievement in secondary schools within the Mara region of Tanzania. Employing a qualitative approach and case study design, 41 participants were purposefully sampled, including school administrators, teachers, and students. Data collection involved semi-structured interviews, focus group discussions, and document analysis, with thematic research applied for data interpretation. Key findings revealed that specific SSE practices, including teacher-student collaboration, follow-up on teaching and learning, and the provision of examinations, positively influence academic achievement. However, stakeholders displayed mixed perceptions towards SSE/ISQA, with concerns about transparency and potentially …

Exploring The Use Of Experiential Learning Strategies To Develop Science Process Skills In Primary Schools In Arua City – West Nile, Uganda., Wilfred Joe Ken Okwaimung

Master of Education

Teachers in Uganda still make use of the traditional teacher-centred pedagogies that do not factor in the learners’ past experiences, interactions, and engagement in the learning process. This reduces the learners’ abilities to acquire some Science Process Skills which are vital for further acquisition of scientific knowledge and skills for future learning and practice of science. Science teaching and learning require practical pedagogies that make the learning meaningful. Using lesson observation, interviews, focus group discussion, and document analysis, this Action Research, sought to find out whether the current pedagogies that teachers used, integrated Experiential Learning Strategies as an intervention to …

Ai In Education: Investigating The Potential Of Artificial Intelligence (Ai) To Support Biology Teachers In Improving Their Pedagogical Practices To Teaching Topics Perceived As Difficult., Silas Otiende Ouma

Master of Education

Ensuring learner engagement is crucial for achieving conceptual understanding, especially in biology classes. In Kenya, a noticeable decline in average biology scores, and insights from studies indicate that there is a dominant use of teacher-centered teaching methods which rarely engage learners to enable them to comprehend some of the biology topics that are marred with complexity. This research aimed to explore the potential of Artificial Intelligence (AI) to support biology teachers in improving their pedagogical practices in teaching topics perceived as difficult. The study began by exploring the perceived difficult topics in biology, the current pedagogical approaches used to teach …

Washington University Magazine, August 2024

Washington University Magazine

No abstract provided.

Not Woman Enough: How World Athletics’ Treatment Of Women With Differences In Sexual Development Violates The Olympic Charter And The Un’S Conventions Against Racial Discrimination And Discrimination Against Women, Rachel Crass

Denver Journal of International Law & Policy

In 1966, in response to growing fears that men would attempt to pose as women to win medals in elite competition, the International Olympic Committee (IOC) began gender testing all female athletes through various visual and gynecological evaluations. These tests were quickly deemed to be too invasive and were replaced by other chemical and genetic tests as scientific capabilities advanced. The new tests led to the disqualification of dozens of elite female athletes after results revealed latent Y chromosomes in women with androgen insensitivity conditions. After multiple leading medical societies and international sports governing bodies called for an end to …

Annual Report Of The Registrar 2023/2024, University Of Northern Iowa

Institutional Effectiveness & Planning Documents

Contents:

--- Definitions
--- Some Comparisons
--- Annual Report Data
--- Summary of Attendance
--- Attendance by Session
--- Full-Time Equivalency Enrollment
--- Degrees Granted 2023/24
--- Degree Summary 2023/24
--- Program Certificates 2023/24
--- Miscellaneous Enrollment Information
--- Degrees Granted by College, Degree and Racial/Ethnic Classification

Domestic Supply (A Feminist Proposal), Jennifer Hendricks

UC Law Constitutional Quarterly

No abstract provided.

An Updated Practical Guide To Taking And Defending Depositions, Gary Gildin

Faculty Scholarly Works

The deposition offers a singular opportunity to handcuff the deponent to an irreversible script. Consequently, both the attorney taking the deposition and defending counsel must prepare for and conduct the deposition with equal if not greater care than the trial.

Traditionally, lawyers have used the deposition to discover facts relating to the legal elements and the credibility, perception, and recollection of the witness. However, recent breakthroughs in neuroscience as to how the brain makes decisions have revealed a different genre of evidence that will drive how the trier of fact will decide the case. Today an attorney taking a deposition …

Empirical Determination Of The Carbon Impacts Of Urban Forest Management In Hong Kong: Removal Of Acacia Confusa And Leucaena Leucocephala, Shing Him, Louis Lee, Yin Wai, Riki Chan, Yin Chi, Gigi Leung, Yi Man, Anthea Cheung, Allen Hao Zhang

Department of Construction, Environment and Engineering

Urban trees contribute to decarbonisation. However, the removal of trees may release the stored carbon within them. In Hong Kong, Acacia confusa and Leucaena leucocephala are being removed, but with unknown carbon impacts. This industry-academia-government collaborative research aimed to: (1) report the amount of carbon stored inside A. confusa and L. leucocephala harvested from slopes; (2) estimate the carbon storage of a tree using dendrometric measurements; and (3) explain the variation in carbon content percentage of urban trees with respect to tree species, part of the tree, and position within the part. 10 A. confusa and 10 L. leucocephala were …

Hostos Community College Academic Bulletin 2023-2024, Hostos Community College

College Bulletins

This is the official college catalog for 2023-2024. It contains course descriptions as well as information on degree programs, college resources and services, financial aid, admissions, and the academic calendar.

Exploring Women`S Perceptions Of Climate Change Impact On Agriculture, Health & Food Security In Upper Hunza, Gilgit Baltistan, Ambreen, Elina Nizar Ali, Taiba Yar Baig, Fozia Parveen

Institute for Educational Development, Karachi

The Hindu Kush Himalayan (HKH) region, renowned for its towering mountains and major river basins, sustains nearly 1.4 billion people worldwide and is pivotal to global food production. Glacial melt from the HKH region nourishes agriculture, livestock, and horticulture, supporting the livelihoods of mountain communities. However, climate change is accelerating the melting of glaciers, and shifts in wet seasons significantly impact food security in these communities. Sectors such as water resources, agricultural land, and human health, particularly women’s health, are significantly affected by these changes. For centuries, agriculture has been the backbone of Gilgit-Baltistan’s economy, with over 70% of livelihoods …

A Quest For Gender Equity: Exploring The Existing Positioning Of Children And Teachers In An Early Childhood Classroom In Karachi Pakistan, Nasima Shakeel, Dilshad Ashraf

Institute for Educational Development, Karachi

Within the framework of Sustainable Development Goals, children are recognized as active change agents in the global development agenda (The Lancet, 2022). Research has established that engaging young children has the potential to promote gender equity and reduce other inequities in society (UN Women 2020). Despite this, limited research has been conducted on gender equity issues in education and early childhood education particularly in Pakistan (Pardhan & Pelletier, 2016). In response to this gap, collaborative action research was conducted to explore the possibilities of creating a gender-equitable learning environment in an early childhood classroom in Karachi Pakistan. This paper presents …

Naomi Kinney Honors Portfolio, Naomi Kinney

Honors Capstone Portfolios

Naomi Kinney's Honors Portfolio captured in August 2024.