Digital Commons Network^™

Establishment Of A Reverse Genetics System For Studying Human Immune Functions In Mice, Priya Pal, Shuai Gao, Hongbo Gao, Xiwen Qin, Marina Cella, Qiankun Wang, Liang Shan

2020-Current year OA Pubs

Reverse genetics approaches in mice are widely used to understand gene functions and their aberrations in diseases. However, limitations exist in translating findings from animal models to human physiology. Humanized mice provide a powerful bridge to understanding human physiology and mechanisms of disease pathogenesis while maintaining the feasibility of working with small animals. Methods for generating humanized mouse models that allow scientists to probe contributions of particular genes have been rudimentary. Here, we established an efficient method for generating genetically modified human cord blood-derived CD34

A Narrative Study Of How Secondary School Teachers Experience Generative Ai Writing Tools In The English Language Arts Classroom, Nick Brodell

Doctor of Education (EdD)

With the presence of artificial intelligence (AI) programs such as ChatGPT commonplace in secondary English language arts (ELA) classrooms, scholars and practitioners are both curious and skeptical about the technology’s ability to help students improve their ELA skills. Teachers have been using tutoring software and Web 2.0 technologies for decades, yet AI writing tools offer new functionalities. Teachers and administrators have experiences engaging with the benefits and burdens of the technology, and scholars of composition pedagogy, ITS (intelligent tutoring systems), and ML (machine learning) have theories about students using it for skills acquisition and practice. This study collected and analyzed …

Unveiling The Clinicopathological Outcomes Of Breast Cancer In Young Women: A Perspective From Resource-Limited Settings, Kulsoom Shaikh, Aiman Arif, Mehwish Mooghal, Lubna Vohra

Sultan Qaboos University Medical Journal

Objectives: This study aimed to assess the incidence of breast cancer in young women over a ten-year period and examine its association with clinical characteristics, risk factors, treatment modalities, and survival outcomes. Methods: A retrospective analysis of the Breast Cancer Registry at our institution was conducted. Of the 2,238 women diagnosed with breast cancer between 2012 and 2021, 535 (23.9%) were aged 40 years or younger at the time of diagnosis. Cases with missing data for independent variables were excluded from the respective analyses. Results: The mean age at diagnosis was 34.5 years (range: 15–40). The most common clinical …

Conformational Ligand-Directed Targeting Of Calcium-Dependent Receptors In Acute Trauma, Renata Pasqualini, Christopher Markosian, Daniela I Staquicini, Andrey S Dobroff, Esteban Dodero-Rojas, Paul C Whitford, E Magda Barbu, Julianna K Bronk, Marina Cardó-Vila, Dawn R Christianson, Emmanuel Dias-Neto, Wouter H P Driessen, Liliana Guzman-Rojas, Serena Marchiò, Diana N Nunes, Francislon S De Oliveira, Michael G Ozawa, Bettina Proneth, Roberto Rangel, Tracey L Smith, Glauco R Souza, Fernanda I Staquicini, Fenny H F Tang, Wallace B Baze, João C Setubal, John W Burns, Michael A Dubick, Juri G Gelovani, Andriy I Batchinsky, Jon E Mogford, Charles E Wade, John B Holcomb, Stephen K Burley, José N Onuchic, Wadih Arap

Faculty, Staff and Student Publications

Background: Trauma is a leading cause of mortality, but injury-specific molecular targets remain largely unknown. We hypothesized that distinctive yet unrecognized tissue targets accessible to circulating ligands might emerge during trauma, thereby underscoring a trauma-related proteome.

Methods: We screened a peptide library to discover targets in a porcine model of major trauma: compound femur fracture with hemorrhagic shock. Bioinformatics yielded conserved motifs, and candidate receptors were affinity purified. In silico and in vitro approaches served to investigate possible associations between candidate receptors and calcium, a major component of skeletal muscle and bone. In vivo homing and molecular imaging (PET/MRI and …

Src/Fn1 Pathway Activation Drives Tumor Cell Cluster Formation And Metastasis In Lung Cancer: A Promising Therapeutic Target, Zujun Que, Zhichao Xi, Dan Qi, Rongchen Dai, Yang Li, Mengfan Liu, Bin Luo, Jiajun Liu, Pan Yu, Yun Yang, Erxi Wu, Hongxi Xu, Jianhui Tian

Children’s Nutrition Research Center Staff Publications

Lung cancer remains the leading cause of cancer-related death globally, with metastasis driven by circulating tumor cells (CTCs)-particularly clusters-being a major treatment challenge. Despite their critical role, the biological differences between single CTCs and CTC clusters remain unclear. Here, we comprehensively compared their behavioral, transcriptomic, and proteomic profiles in lung cancer models. Compared with single cells, CTC clusters present enhanced metastatic potential, greater survival in the bloodstream and increased resistance to microenvironment. Mechanistically, the Src/FN1 pathway is centrally activated in clusters, promoting intercellular cohesion and protecting against immune clearance and stress in circulation. Pharmacological inhibition of Src with the clinical …

Antibiotic Use In Rural Kenyan Livestock: Navigating Misuse, Experience Gaps And Amr Risks, Lucy Obolensky, Esbon Wambugu, Edna Kubai, Iain Doig, Miriam Beattie, Michael Dillon

Peninsula Medical School

Antimicrobial resistance (AMR) is an escalating global health threat, with the greatest risk observed in low- to middle-income countries, particularly in the global south. The World Health Organization advocates for a One Health approach to address AMR, promoting collaboration across sectors, including in agriculture. This study aims to enhance understanding of antimicrobial use and stewardship in livestock within pastoralist communities in northern Kenya, where there is limited information. The study employed a qualitative approach, using semi-structured interviews to gather data on farming practices and antibiotic use. Interviews were conducted by trained volunteers proficient in Swahili and Ma (a Maasai language), …

Occurrence Of Pesticides In Oregon Coastal Waters And Effects On The Intertidal Sea Anemone, Anthopleura Elegantissima, Gabriella Mae Bleil

Dissertations and Theses

Pesticides are used globally for a wide range of applications including agricultural, forestry, roadsides, freshwater systems, and personal use. While pesticides have ensured efficient crop production, they are frequently transported away from application sites and are ubiquitous in terrestrial and aquatic environments. Pesticides are often detected in watersheds and rivers globally, which can have unintentional toxic effects on non-target organisms by interfering with cellular processes, behavior, feeding, reproduction, and disrupting endocrine processes. The aggregating anemone, Anthopleura elegantissima, is an important species along the North American Pacific coast due to its symbiotic relationships that contribute to high productivity, and its …

Comparison Of Leveling A Deep Curve Of Spee With Extractions Versus Non-Extraction: A Biomechanical Perspective, Mitchell James Muller

Master's Theses (2009 -)

Introduction: This study evaluated and compared orthodontic forces from different archwire designs and materials used to correct a deep curve of Spee. Methods: A three-dimensional orthodontic force tester (OFT) was used to measure forces and moments exerted by archwires on brackets from central incisors to first molars. Two setups were tested: one with a full dentition from central incisor to first molar, and another simulating bicuspid extractions with the first premolar removed. Dentoform models representing a deep curve of Spee were created using cone-beam computed tomography (CBCT) data. The setup employed 0.022 × 0.028-inch zero-prescription brackets secured with elastomeric ligatures. …

A Learning Plan On The Understanding Of The Philippine Disaster Risk, Ermor Francisco-Martizano

Annual Research Congress for High School and Elementary Teachers, Researchers, and Scholars (ARCHERS)

This learning plan is designed to foster a deeper understanding of Disaster Readiness and Risk

Reduction in the Philippines. The following objectives are set to be accomplished by the end of the lesson:

A. identify the various types of disasters and their respective characteristics;

B. comprehend the risk factors associated with different types of disaster;

C. apply principles of disaster readiness and response;

D. explain the Sustainable Development Goals connected to the Philippine Disaster Risk.

These goals are aligned with the 11th Sustainable Development Goal, which aims to make cities and human

settlements inclusive, safe, resilient and sustainable and the …

A Learning Plan On The Understanding Of Abo Blood Group Compatibility, Ermor Francisco-Martizano

Annual Research Congress for High School and Elementary Teachers, Researchers, and Scholars (ARCHERS)

This learning plan is designed to gain a better understanding of ABO blood group compatibility, including how blood types are determined, their importance, and how they affect blood transfusions and organ transplants. The following objectives outline the specific objectives to be accomplished by the end of the lesson:

A. identify the different blood types and their characteristics;

B. understand the importance of ABO blood group compatibility in blood transfusions and organ transplants;

C. enumerate the consequences of incompatible blood transfusions and organ transplants;

D. demonstrate blood typing techniques to know ABO blood compatibility.

The goals above are aligned with the …

Bridging Prairie Restoration And Regenerative Agriculture With Compost Tea, April Hersey

2025 Symposium

Inland Pacific Northwest prairie is an endangered ecosystem that has been reduced by conversion to agriculture. There is growing interest in the role of soil microorganisms in prairie ecosystems, which may be crucial for restoration of the plant community through interspecies interactions within the soil near plant roots. One method for improving soil microorganism community composition is compost tea: enriched liquid compost extract. Compost tea is used in regenerative agriculture to improve crop yields and protect against pathogens, ostensibly through the activity of the added compost microbes. While research has supported compost tea application in regenerative agriculture, it has not …

Niche Conservatism And Sympatric Parallel Evolution May Help To Maintain Eight Nascent Tree Taxa Along A Sharp Elevation Gradient, Elizabeth A. Stacy, Rebecca Ostertag

Life Sciences Faculty Research

1. Patterns of niche partitioning among closely related taxa, such as those in incipient adaptive radiations, can provide clues into how niches are created, partitioned, and integrated over ecological and evolutionary time scales. Hawaiian Metrosideros is a ~3-MYO adaptive radiation of trees that dominates the Hawaiian Islands in continuous stands within islands and allows examination of niche partitioning at the early stages of adaptive radiation.
2. We monitored growth and survivorship over 2 years of seedlings derived from open-pollinated fruits of eight Metrosideros taxa distributed along the elevation gradient of Koʻolau Volcano, Oʻahu, under four combinations of light and phosphorus. We included …

Corrosion Behavior Of Mgtizn And Mg4tizn Alloys After Ball Milling And Subsequent Spark Plasma Sintering, Alexander Helmer, Rahul Agrawal, Manoj Mugale, Tushar Borkar, Rajeev Gupta

Mechanical Engineering Faculty Publications

Magnesium-containing multi-principal element alloys (MPEAs) are promising for lightweight applications due to their low density, high specific strength, and biocompatibility. This study examines two Mg-Ti-Zn alloy compositions, equal molar MgTiZn (TZ) and Mg4TiZn (4TZ), synthesized via ball milling followed by spark plasma sintering, focusing on their microstructures and corrosion behaviors. X-ray diffraction and transmission electron microscopy revealed the formation of intermetallic phases, including Ti2Zn and Mg21Zn25 in TZ, while 4TZ exhibited a predominantly Mg-rich phase. Potentiodynamic polarization and immersion tests in 0.1 M NaCl solution showed that both alloys had good corrosion resistance, with values of 3.65 +/- 0.65 mu …

Discrete Time Series Forecasting In Non-Invasive Monitoring Of Managed Honey Bee Colonies: Part Ii: Are Hive Weight And In-Hive Temperature Seasonal And Colony-Specific, Vladimir A. Kulyukin, Aleksey V. Kulyukin, William G. Meikle

Computer Science Faculty and Staff Publications

We explored the stationarity, trend, and seasonality of the hive weight and in-hive temperature of ten managed honey bee (Apis mellifera) colonies at a research apiary of the Carl Hayden Bee Research Center in Tucson, Arizona, USA. The hives were monitored with electronic scales and in-hive temperature sensors from June to October 2022. The weight and temperature were recorded every five minutes around the clock. The collected data were curated into 2160 timestamped weight and 2160 timestamped temperature observations. We performed a systematic autoregressive integrated moving average (ARIMA) time series analysis to answer three fundamental questions: (a) Does …

Oscillatory Flow Improves Hydrodynamic Ordering Of Soft Suspensions In Rectangular Channels, Paul C. Millett

Mechanical Engineering Faculty Publications and Presentations

A computational study is presented that examines the hydrodynamic ordering of soft-particle suspensions within rectangular channels undergoing both steady and oscillatory flow. In these conditions, particles assemble into one-dimensional train-like configurations aligned in the flow direction. The results indicate that oscillatory flow facilitates a significant improvement in the ordering process, particularly for the assembly of multiple side-by-side trains within the channel. Several key parameters are systematically varied, including the Wolmersley number (Wo) representing the oscillatory frequency, the capillary number (Ca) representing the particle deformability, and the particle volume fraction (phi). It is found that optimal ordering occurs for a particular …

Identification Of Serum Exosome Proteins In Systemic Sclerosis With Interstitial Lung Disease By Aptamer Proteomics, Sonsoles Piera-Velazquez, Simon T. Dillon, Xuesong Gu, Towia A. Libermann, Sergio A. Jimenez

Jefferson Institute of Molecular Medicine Papers and Presentations

OBJECTIVE: A major unmet need for Systemic Sclerosis (SSc) clinical management is the absence of well validated biomarkers for early diagnosis of SSc-associated interstitial lung disease (SSc-ILD). The objective of this study was to identify proteins contained within serum exosomes that may serve as potential biomarkers to differentiate patients with Diffuse SSc without SSc-ILD from patients with Diffuse SSc with SSc-ILD employing aptamer-based proteomics.

METHODS: Serum exosomes were isolated from two cohorts of patients. The first cohort included 15 patients with Diffuse SSc without SSc-ILD and 14 patients with Diffuse SSc with SSc-ILD and the second cohort included 12 patients …

Biomedical Research And The “-Omics” Revolution, Andrew N. Rowan

WellBeing News

An "-omics" revolution (genomics, proteomics, metabolomics) supported by AI is transforming biomedical research. Scientists are now proposing to add an "Exposomics" element to ensure that environmental exposures are adequately considered when advancing human health.

Social Forestry As Solution To Agrarian Conflicts? A Case Study Between Oil Palm Smallholders And Industrial Plantations In Jambi, Indonesia, Muhammad Reza Halomoan, Arya Hadi Dharmawan, Satyawan Sunito

Forest and Society

Extraction activities across Indonesia have caused drastic changes to forest ecologies. The Indonesian government responded to this through a policy of Industrial Plantation Forest concessions, which were given to the private sector in the hopes of overcoming damages from forest extraction activities while at the same time utilizing unproductive forest land. However, this policy does not pay attention to the existence of people who de facto control and use the land and has triggered new conflicts around agrarian claims based on different interpretations of land rights. In an effort to resolve conflicts, the government has implemented a community-based forest area …

The Patchwork Quilt Of Global Mangrove Conservation: Mapping The Landscape Of International Treaties, Pradip Kumar Sarker, Md Faisal Abedin Khan, Fredy Polo Villanueva, Lukas Giessen

Forest and Society

Mangroves at the land-sea interface offer invaluable goods and services through their unique ecosystem. Society has responded by developing governance mechanisms to manage these resources sustainably, which is crucial for societal well-being. The global environmental governance landscape is a complex network of treaty-based regimes addressing various ecological challenges. This study aims to examine the treaty-based regimes governing mangrove conservation, systematically mapping and identifying authoritative global mangrove regimes. It analyses the fragmentation scale regarding synergies, conflicts, and neutral relationships between global environmental treaties. Online scoping reviews and content analysis revealed that the Ramsar Convention serves as the legal authority of the …

Long-Read Sequencing Is Required For Precision Diagnosis Of Incontinentia Pigmenti., Monica H. Wojcik, Robin D. Clark, Abdallah F. Elias, Casie A. Genetti, Jill A. Madden, Dana Simpson, Linda Golkar, Miranda P G Zalusky, Angela L. Miller, Araceli Rodriguez, Joy Goffena, Camille A. Dash, Nikhita Damaraju, Sophia B. Gibson, Sophie H R Storz, Zachary B. Anderson, Jonas A. Gustafson, Isabelle Thiffault, Emily G. Farrow, Tomi Pastinen, Jasmine Lin, Jennifer T. Huang, Alan H. Beggs, Pankaj B. Agrawal, Genomics Research To Elucidate The Genetics Of Rare Diseases (Gregor) Consortium, David T. Miller, Danny E. Miller

Manuscripts, Articles, Book Chapters and Other Papers

Incontinentia pigmenti (IP) is caused by loss-of-function variants in IKBKG, with molecular genetic diagnosis complicated by a pseudogene. We describe seven individuals from three families with IP but negative clinical genetic testing in whom long-read sequencing identified causal variants, including one family with the common exon 4-10 deletion not identified by conventional clinical genetic testing. Concurrent methylation analysis explained disease severity in one individual who died from neurologic complications, identified a mosaic variant in an individual with an atypical presentation, and confirmed skewed X chromosome inactivation in an XXY individual.

Meta-Analysis Of Uveal Melanoma Genome-Wide Association Studies Identifies Novel Risk Loci And Population Effect Size Heterogeneity., Georgia Mies, Noah L. Tsao, Alexandre Houy, Sarah E. Coupland, Helen Kalirai, Asta Försti, Kari Hemminki, Hauke Thomsen, Marc-Henri Stern, Carol L. Shields, Scott M. Damrauer, Katheryn G. Ewens, Arupa Ganguly, Iain Mathieson

Wills Eye Hospital Papers

Uveal melanoma (UM) is a rare but frequently metastasizing cancer. Genome-wide association studies have identified three common genome-wide significant germline risk loci. Here, we perform a genome-wide association study on 401 new cases and conduct a meta-analysis with three independent previously published cohorts for a total sample size of 2,426 cases. We confirm the three previously identified risk loci and identify four additional genome-wide significant loci. We find that eye pigmentation-decreasing variants are systematically associated with increased UM risk and that selection for lighter pigmentation in the past 5,000 years explains about 73% of the difference in UM incidence between …

Salinity And Moisture Influence Co2 And Ch4 Emissions From High-Latitude Coastal Soils, B. N. Barr, K. C. Kelsey, A. J. Leffler, M. Petit Bon, K. H. Beard

Wildland Resources Faculty Publications

Sea level rise and more frequent and larger storms will increase saltwater flooding in coastal terrestrial ecosystems, altering soil-atmosphere CO₂ and CH₄ exchange. Understanding these impacts is particularly relevant in high-latitude coastal soils that hold large carbon stocks but where the interaction of salinity and moisture on greenhouse gas flux remains unexplored. Here, we quantified the effects of salinity and moisture on CO₂ and CH₄ fluxes from low-Arctic coastal soils from three landscape positions (two Wetlands and Upland Tundra) distinguished by elevation, flooding frequency, soil characteristics, and vegetation. We used a full factorial laboratory incubation experiment …

Integrase-Deficient Lentiviral Vector As A Platform For Efficient Crispr/Cas9-Mediated Gene Editing For Mucopolysaccharidosis Iva, Fnu Nidhi, Shunji Tomatsu

Department of Pediatrics Faculty Papers

Mucopolysaccharidosis IVA (MPS IVA) is a lysosomal storage disorder causing systemic skeletal dysplasia due to a deficiency of N-acetyl-galactosamine-6-sulfate sulfatase (GALNS) enzyme activity, leading to the impaired degradation and accumulation of glycosaminoglycans (GAGs), keratan sulfate (KS) and chondroitin-6-sulfate. While treatments such as enzyme replacement therapy (ERT) and hematopoietic stem cell transplantation (HSCT) are available, they have significant limitations regarding efficacy in skeletal tissues and long-term safety, highlighting the need for more effective therapies. We evaluated a novel gene therapy approach using a dual Integrase-deficient lentiviral vector (IDLV) to deliver an expression cassette that includes human GALNS cDNA and Cas9 sgRNA, …

The Impacts Of Ocean Warming On Phytoplankton Dynamics And Links To Fisheries Management Around St Helena Island, South Atlantic Ocean, Shelby Bargo

The Plymouth Student Scientist

In the context of a rapidly changing climate, understanding how ocean warming is reshaping the foundation of marine ecosystems has never been more important. This research investigates factors contributing to ocean warming, and where anthropogenically influenced climate change plays a critical role in the functionality of the physical marine environment, phytoplankton, and trophodynamics throughout the pelagic zone. Phytoplankton, whilst microscopic, are vital; they are regulated by physical oceanographic factors that control their access to growth-limiting factors, such as nutrients. With the formidable climate-driven physical and biological changes occurring in the marine environment, alongside the decline in fish stocks, it is …

2024 Hon. James R. Browning Symposium Keynote Address: Martin, Grants Pass, And Houselessness As A Class, Howard Belodoff

Montana Law Review

No abstract provided.

Assessment Of Incisive Canal Morphology And Position In A Sample Of Egyptian Population: A Cone Beam Computed Tomography Study, Sherif Shafik

Dentistry

ABSTRACT Several studies have highlighted the diversity in the anatomy of the incisive canal. Evaluation of incisive canal as well as its approximation to the maxillary incisor root is crucial before orthodontic treatment, implant placement and other surgical procedures in the anterior maxillary area. Cone beam computed tomography (CBCT) provides detailed three-dimensional information and have been used to evaluate the nasopalatine region with high accuracy along with relative safety due to low radiation exposure. Aim: The study aimed to provide analysis of the nasopalatine canal anatomy using cone-beam computed tomography (CBCT) in a sample of the Egyptian population. Materials & …

Assessment Of Incisive Canal Morphology And Position In A Sample Of Egyptian Population: A Cone Beam Computed Tomography Study., Caroline Maged Massieh, Hisham Mohamed El Sheikh, Magdy Fouad Youakim, Sherif Shafik El Bahnasy

Dentistry

Several studies have highlighted the diversity in the anatomy of the incisive canal. Evaluation of incisive canal as well as its approximation to the maxillary incisor root is crucial before orthodontic treatment, implant placement and other surgical procedures in the anterior maxillary area. Cone beam computed tomography (CBCT) provides detailed three-dimensional information and have been used to evaluate the nasopalatine region with high accuracy along with relative safety due to low radiation exposure. Aim: The study aimed to provide analysis of the nasopalatine canal anatomy using cone-beam computed tomography (CBCT) in a sample of the Egyptian population. Materials & methods: …

Increasing The Economic And Social Viability Of Carbon Capture Using Biomass Slurry Fracture Injection, Zachary G. Laird

LSU Master's Theses

The climate is changing. This is a fact not a statement, not a theory, and not a falsehood, this is a fact. At the current projections the world’s average temperature is expected to rise by at least 2°C from pre-industrial averages by 2050 (Emissions Pathways to 2100 - Climate Action Tracker, 2024). This temperature rise will be catastrophic for a vast number of communities. What is driving this changing climate? Humans. In particular the carbon emissions caused by human activities. As humans we consume large amounts of meat, causing the need for cattle to increase, generating large amounts …

Comprehensive Resolution And Classification Of The Epstein Barr Virus Transcriptome, Truong D. Nguyen, Jia Wang, Meggie T. Lam, Harris Mcferrin, Tina M. O’Grady, Claire Roberts, Nicholas Van Otterloo, Trang T. Nguyen, Melody Baddoo, Dorota Wyczechowska, Maria Morales, Yan Dong, Erik K. Flemington

School of Graduate Studies Faculty Publications

Virus genomes harbor compacted repertoires of genes and regulatory elements. Through long-read sequencing, we provide a comprehensive Epstein Barr virus (EBV) transcriptome analysis, identifying 1453 transcript isoforms and resolving the major isoform of all but one lytic reading frame. Further, we categorize each transcript according to their dependence on viral DNA replication. We show that the late gene viral preinitiation complex, vPIC also activates early promoters/genes, we identify active alternate promoters with distinct dependencies on viral DNA replication, we discover biphasic promoters with embedded features of both early and late promoters. Genetic and chromatin interaction studies identify an enhancer function …

Optimizing Stereotactic Intracranial Neoplasm Treatment: A Systematic Review Of Pet Integration With Gamma Knife Radiosurgery, Robert C. Subtirelu, Eric M. Teichner, Milo Writer, Kevin Bryan, Shiv Patil, Talha Khan, Lancelot Herpin, Raj N. Patel, Emily Christner, Chitra Parikh, Thomas Werner, Abass Alavi, Mona-Elisabeth Revheim

SKMC Student Presentations and Publications

OBJECTIVE: Traditional imaging modalities for the planning of Gamma Knife radiosurgery (GKRS) are non-specific and do not accurately delineate intracranial neoplasms. This study aimed to evaluate the utility of positron emission tomography (PET) for the planning of GKRS for intracranial neoplasms (ICNs) and the post-GKRS applications of PET for patient care.

METHODS: PubMed, Scopus, and ScienceDirect were searched in order to assemble relevant studies regarding the uses of PET in conjunction with GKRS for ICN treatment. PRISMA (Preferred Reporting Items for Systematic Reviews and Meta-Analyses) guidelines were followed to identify relevant studies on the use of PET in conjunction with …