Digital Commons Network^™

Distinct Systemic Impacts Of Aβ42 And Tau Revealed By Whole-Organism Snrna-Seq, Ye-Jin Park, Tzu-Chiao Lu, Tyler Jackson, Lindsey D Goodman, Lindsey Ran, Jiaye Chen, Chung-Yi Liang, Erin Harrison, Christina Ko, Xi Chen, Baiping Wang, Ao-Lin Hsu, Elizabeth Ochoa, Kevin F Bieniek, Shinya Yamamoto, Yi Zhu, Hui Zheng, Yanyan Qi, Hugo J Bellen, Hongjie Li

Faculty, Staff and Students Publications

Both neuronal and peripheral tissues become disrupted in Alzheimer's disease (AD). However, a comprehensive understanding of how AD impacts different tissues across the whole organism is lacking. Using Drosophila, we generated an AD Fly Cell Atlas (AD-FCA) based on whole-organism single-nucleus transcriptomes of 219 cell types from flies expressing AD-associated proteins, either human amyloid-β 42 peptide (Aβ42) or Tau, in neurons. We found that Aβ42 primarily affects the nervous system, including sensory neurons, while Tau induces accelerated aging in peripheral tissues. We identified a neuronal cluster enriched in Aβ42 flies, which has high lactate dehydrogenase (LDH) expression. This LDH-high cluster …

A Single High-Zinc Activation Enhancer Can Control Two Genes Oriented Head-To-Head In Caenorhabditis Elegans, Hanwenheng Liu, Brian Earley, Adelita Mendoza, Patrick Hunt, Sean Teng, Daniel Luke Schneider, Kerry Kornfeld

2020-Current year OA Pubs

Enhancers play critical roles in gene expression, but a full understanding of their complex functions has yet to be defined. The cellular response to excess zinc levels in Caenorhabditis elegans requires the HIZR-1 transcription factor, which binds the high-zinc activation (HZA) enhancer in the promoters of multiple target genes. Cadmium hijacks the excess zinc response by binding and activating HIZR-1. By analyzing the genome-wide transcriptional response to excess zinc and cadmium, we identified two positions in the genome where head-to-head oriented genes are both induced by metals. In both examples, a single predicted HZA enhancer is positioned between the two …

Computational And Imaging Approaches For Precision Characterization Of Bone, Cartilage, And Synovial Biomolecules., Rahul Kumar, Kyle Sporn, Vibhav Prabhakar, Ahab Alnemri, Akshay Khanna, Phani Paladugu, Chirag Gowda, Louis Clarkson, Nasif Zaman, Alireza Tavakkoli

Department of Medicine Faculty Papers

Abstract

Background/Objectives: Degenerative joint diseases (DJDs) involve intricate molecular disruptions within bone, cartilage, and synovial tissues, often preceding overt radiographic changes. These tissues exhibit complex biomolecular architectures and their degeneration leads to microstructural disorganization and inflammation that are challenging to detect with conventional imaging techniques. This review aims to synthesize recent advances in imaging, computational modeling, and sequencing technologies that enable high-resolution, non-invasive characterization of joint tissue health. Methods: We examined advanced modalities including high-resolution MRI (e.g., T1ρ, sodium MRI), quantitative and dual-energy CT (qCT, DECT), and ultrasound elastography, integrating them with radiomics, deep learning, and multi-scale modeling approaches. We …

Callison College Promotional Book: Japan, Callison College

Callison College and School of International Studies

No abstract provided.

Callison And Raymond College Course Offerings, Callison College

Callison College and School of International Studies

No abstract provided.

Stormwater Treatment Practices - Guidance For Maintenance And Targeting Pollutants, Peter T. Weiss

Stormwater Drainage Conference

Stormwater Drainage Conference

Biochar-Based Filtration And Barrier Systems For Urban Stormwater Treatment, Krishna R. Reddy

Stormwater Drainage Conference

Conference that deals a wide range of issues dealing with stormwater drainage. Professor Krishna Reddy of University of Illinois Chicago presented an invited talk titled "Biochar-Based Filtration and Barrier Systems for Urban Stormwater Treatment"

Design Of A Simplified Biomimetic Autonomous Entertainment Robot, Jessica E. Morris, Shanny May Ruiz, Morgan Snyder, Hannah Guild, Gabriel Cardona-Tous

Graduate Scholarship and Creative Works

The advancement of technology has paved the way for robots with the purpose of entertainment to become more popular. However, the exploration of biomimetic actions as a factor of entertainment is majorly limited to the mimicry of young domesticated animals such as puppies and kittens, with some notable exceptions. However, there is a wide range of possibilities for robotics that mimic animals marketed as pets, outside of the common examples. This work seeks to explore the opportunity for autonomous systems with entertainment driven and expressive actions in the family of Testudines (turtles and tortoises), an undomesticated species, but still often …

Digital Literature: A Modern Concept Of Contemporary Literature, Dala Jamal

Al Jinan الجنان

Since the earliest eras of his existence on this Earth, man has attempted to document his daily experiences using various available means: from carving on rocks and stones to drawing in caves, then documenting on animal skins after the invention of letters, and later writing on paper. In our modern era, we have reached documentation on computers, which represents a significant shift in the way we document due to its advanced features that surpass human intellect. In this research, I aimed to shed light on a new literary genre that emerged from the computer two decades ago and can only …

Respiratory Recovery Via Endogenous And Electrical Stimulation-Induced Mechanisms Following Cervical Spinal Cord Injury, Taylor C. Holmes

Dissertations (1934 -)

Breathing is a complex neuromuscular behavior vital for the maintenance of life. Cervical spinal cord injury (cSCI) disrupts descending respiratory motor drive and can lead to profound breathing impairments. While a limited, endogenous recovery of respiratory function has been well described following cSCI, this work has predominantly utilized single sex investigations. Given that relatively few treatment options exist to address this respiratory insufficiency, a more complete characterization of respiratory recovery post-cSCI is necessary for the development and evaluation of rehabilitative protocols. Diaphragm pacing (DP) is an emerging clinical intervention that utilizes electrical stimulation of the diaphragm muscle to combat the …

Modulation Of Redox-Sensitive Cardiac Ion Channels, Rawan S. Orfali, Al Hassan Gamal El-Din, Varnika Karthik, Elisanjer Lamis, Vanna Xiao, Alena Ramanishka, Abdullah Alwatban, Osama Alkhamees, Ali Alaseem, Young-Woo Nam, Miao Zhang

Pharmacy Faculty Articles and Research

Redox regulation is crucial for the cardiac action potential, coordinating the sodium-driven depolarization, calcium-mediated plateau formation, and potassium-dependent repolarization processes required for proper heart function. Under physiological conditions, low-level reactive oxygen species (ROS), generated by mitochondria and membrane oxidases, adjust ion channel function and support excitation–contraction coupling. However, when ROS accumulate, they modify a variety of important channel proteins in cardiomyocytes, which commonly results in reducing potassium currents, enhancing sodium and calcium influx, and enhancing intracellular calcium release. These redox-driven alterations disrupt the cardiac rhythm, promote after-depolarizations, impair contractile force, and accelerate the development of heart diseases. Experimental models demonstrate …

Total Synthesis And Biological Activity Of "Carbamorphine": O-To-Ch2 Replacement In The E-Ring Of The Morphine Core Structure, Sota Akiyama, Rohini S Ople, Alexander Kremsmair, Nokomis Ramos-Gonzalez, Thomas Nedungadan, Brandon J Kennedy, Kevin Appourchaux, Shainnel O Eans, Bowen A Tsai, Christina Kraml, Xi-Ping Huang, Jay P Mclaughlin, Susruta Majumdar, Richmond Sarpong

2020-Current year OA Pubs

Morphine is a µ-opioid receptor (MOR) agonist and potent analgesic. However, it displays several side effects including respiratory depression and addiction. Here, we show that a single heavy atom replacement in the morphine core structure (O to CH

Action-Mode Subnetworks For Decision-Making, Action Control, And Feedback, Carolina Badke D'Andrea, Timothy O Laumann, Dillan J Newbold, Charles J Lynch, Mohammad Hadji, Steven M Nelson, Ashley N Nielsen, Roselyne J Chauvin, Samuel R Krimmel, Abraham Z Snyder, Scott Marek, Deanna J Greene, Marcus E Raichle, Nico U F Dosenbach, Evan M Gordon

2020-Current year OA Pubs

The action-mode network (AMN) is a canonical functional brain network first identified using resting-state functional connectivity (RSFC). Based on animal and human data, we have proposed that AMN supports the brain's action mode by controlling functions required for successful goal-directed behavior. However, task fMRI averaged across groups has associated AMN regions with a variety of behaviors, contributing to uncertainty about AMN function. Here, we investigated the AMN using an inside-out approach, in which the network architecture of the AMN is first precisely mapped within individuals and then associated with behavioral functions. Individual-specific precision functional mapping with >5 h of RSFC …

Involvement Of Microglia In Retinal Ganglion Cell Injury Induced By Iop Elevation In A Rat Ex Vivo Acute Glaucoma Model, Taimu Sato, Makoto Ishikawa, Yukitoshi Izumi, Naoya Shibata, Kota Sato, Michiko Ohno-Oishi, Hiroshi Tawarayama, Hiroshi Kunikata, Charles F Zorumski, Toru Nakazawa

2020-Current year OA Pubs

No abstract provided.

Quantifying Impacts Of Microplastic Emissions In Life Cycle Impact Assessment, Maria Elena Corella Puertas

Micro-Nano Plastics in Water: Characterization, Cure and Prevention

Please click Additional Files below to see the full abstract

Livestock Poultry Health Committee Minutes, Clemson University Board Of Trustees, 2025 July 8, Clemson University Board Of Trustees

Minutes

No abstract provided.

Genome-Wide Characterization Of Vdac Gene Family In Soybean (Glycine Max L.) And In Silico Expression Profiling In Response To Drought And Salt Stress, Muhammad Muneeb Ullah, Muqadas Aleem, Mudassar Muhammad Iqbal, Ainong Shi

Horticulture Faculty Publications and Presentations

Soybean (Glycine max L.) is grown worldwide to obtain edible oil, livestock feed, and biodiesel. However, drought and salt stress are becoming serious challenges to global soybean cultivation as they retard the growth of soybean plants and cause significant yield losses. Voltage-dependent anion-selective channel (VDAC) proteins are well-known for their role in drought and salt tolerance in crop plants. In this study, we identified 111 putative VDAC genes randomly distributed in genomes of 14 plant species, including cultivated soybean (Glycine max) and wild soybean (Glycine soja). The comparative phylogenetic studies classified these genes into six different clades and found the …

Systemic Carbonic Anhydrase Inhibitors In Common Ophthalmic Diseases: A Scoping Review From A Clinical Standpoint, Shahin Hallaj, Wesam S. Shalaby, Sapna Sinha, Jonathan S. Myers, Reza Razeghinejad

Wills Eye Hospital Papers

PURPOSE OF REVIEW: This paper provides a detailed overview of systemic carbonic anhydrase inhibitors (CAIs) and their application in managing ophthalmic conditions, including glaucoma, cystoid macular edema, and idiopathic intracranial hypertension. Despite their recognized clinical benefits, the potential for severe systemic adverse effects often discourages clinicians from prescribing these agents. By examining the pharmacology, pharmacokinetics, safety profile, and clinical indications of systemic CAIs, this review highlights strategies to mitigate treatment challenges, particularly in patients with comorbidities and complex medical backgrounds.

RECENT FINDINGS: New insights into the diverse roles and distribution of carbonic anhydrase (CA) isozymes have expanded our understanding of …

Zoo Visitors Learn By Observing Olive Baboons (Papio Anubis) Participate In Cognitive Research Or Engage In Natural Behaviors, Anna Sofia Hege

Theses

I conducted two experiments at the baboon exhibit at the Seneca Park Zoo in Rochester, New York to measure attitudes and actual knowledge in children and adults, as well as perceived learning in adults. I also recorded caregiver-child conversations in the presence and absence of live research. Experiment 1 included 150 adult participants, and Experiment 2 included 18 caregiver-child dyads. In each experiment, the research on-scientist present and research on-scientist absent group watched the baboons engage with live cognitive research while the research off-scientist present and research off-scientist absent group watched the baboons carry out their natural behaviors. A scientist …

Mtor Signaling Regulates The Development Of Airway Mucous Cell Metaplasia Associated With Severe Asthma, Katrina M. Kudrna, Luis F. Vilches, Evan M. Eilers, Shailendra K. Maurya, Steven L. Brody, Amjad Horani, Kristina L. Bailey, Todd A. Wyatt, John D. Dickinson

2020-Current year OA Pubs

In asthma, airway epithelial remodeling is characterized by aberrant goblet cell metaplastic differentiation accompanied by epithelial cell hyperplasia and hypertrophy. These pathologic features in severe asthma indicate a loss of control of proliferation, cell size, differentiation, and migration. MTOR is a highly conserved pathway that regulates protein synthesis, cell size, and proliferation. We hypothesized that the balance between MTOR and autophagy regulates mucous cell metaplasia. Airways from individuals with severe asthma showed increased MTOR signaling by RPS6 phosphorylation, which was reproduced using an IL-13-activated model of primary human airway epithelial cells (hAEC). MTOR inhibition by rapamycin led to a decrease …

Inflammation And Il-4 Regulate Parkinson’S And Crohn’S Disease Associated Kinase Lrrk2, Dina Dikovskaya, Rebecca Pemberton, Matthew Taylor, Anna Tasegian, Purbasha Bhattacharya, Karolina Zeneviciute, Esther M. Sammler, Andrew J.M. Howden, Dario R. Alessi, Mahima Swamy

Peninsula Medical School

Mutations in Leucine-Rich Repeat protein Kinase 2 (LRRK2) are associated with Parkinson’s disease (PD) and Crohn’s disease (CD), but the regulation of LRRK2 during inflammation remains relatively unexplored. Here we describe the development of a flow cytometry-based assay to assess LRRK2 activity in individual cells and the generation of an EGFP-Lrrk2 knock-in reporter mouse to analyse cell-specific LRRK2 expression. Using these tools, we measured LRRK2 levels and activity in murine splenic and intestinal immune cells and in human blood. Anti-CD3 induced inflammation increases LRRK2 expression and activity in B cells and monocytes, while in mature neutrophils, inflammation stimulates activity but …

Edge-Streamer: A Lightweight, Self-Supervised Event Segmentation Model, Lucas Miller

USF Tampa Graduate Theses and Dissertations

Event segmentation is the practice of autonomously detecting the boundaries of semantically connected sequences of actions within a video. It is connected to many areas of computer vision, including action recognition and event understanding. Nearly all current work requires the entire video to be stored in memory to be processed in multiple passes. This takes up valuable resources, increases processing time, prevents the use of low-power, low-memory devices, and precludes long-form content and live videos from undergoing event segmentation.

This thesis introduces EDGE-STREAMER, a real-time, lightweight, self-supervised, transformer architecture capable of performing event segmentation in a single pass. EDGE-STREAMER uses …

The Impact Of Hands-On Learning Of Physical Agent Modalities In An Occupational Therapy Graduate Curriculum: A Pilot Study, Rachael Vance, Kaitlyn Kolk, Lauren Lesky, Jill Arends, Klaudia O'Malley

Masters Projects

Background: Physical agent modalities (PAMs) are used in preparation for or concurrently with occupational-based activities to facilitate a therapeutic response. It is valuable for OT practitioners to be confident and competent in the use of PAMs in healthcare settings. Nevertheless, there is a gap in proper education, creating a barrier to students' learning. The Accreditation Council for Occupational Therapy Education (ACOTE) standards have only enforced the education of PAMs in accredited programs since 2020. Purpose: This study aims to establish student’s satisfaction with their learning and confidence in using PAMs. It educates clinicians and academic instructors on the …

Extracellular Vesicles In Cancer: From Isolation And Characterization To Metastasis, Drug Resistance, And Clinical Applications, Ancuta Jurj, Doru Paul, George A Calin

Faculty, Staff and Student Publications

Cancer progression, along with other hallmarks of cancer, is sustained through bidirectional cell-to-cell communication. This function is primarily facilitated by lipid-rich nanoparticles expelled into the extracellular matrix by stromal and/or malignant cells. These entities, known as extracellular vesicles, contain a vast repertoire of bioactive molecules and hold promise as potential biomarkers and nanovehicles for drug delivery. Intriguingly, the cellular and molecular mechanisms governing the functions of extracellular vesicles remain poorly understood. In the present manuscript, we highlight the intracellular and intercellular journey of extracellular vesicles, from their inception to the present day, their implications in various hallmarks of cancer, and …

Pi(4)P Recruits Cide Proteins To Promote The Formation Of Unilocular Lipid Droplets During Adipogenesis And Hepatic Steatosis, Jin Wu, Mingming Gao, Xiaoqin Wu, Yang Liu, Taiping Zhang, Yan Liang, Haixia Yang, Chengxin Ma, Youpi Ye, Chunmei Chang, Peng Li, Feng-Jung Chen, Hongyuan Yang

Faculty, Staff and Student Publications

Lipid droplets (LDs) are evolutionarily conserved organelles that play important roles in metabolism. Each LD is enclosed by a monolayer of phospholipids, distinct from bilayer membranes. The composition of LD surface phospholipids and their impact on LD growth and function remain to be defined. Phosphoinositides mark cellular organelles and regulate organellar function. Here, we demonstrate that PI(4)P decorates a subset of LDs to recruit and activate CIDE proteins. Enhanced expression of ORP2 and ORP5, LD-associated lipid transfer proteins that remove PI(4)P from LDs, abolished the localization and function of CIDE proteins. Blocking the synthesis of PI(4)P on the LD surface …

Opposing Roles For Myeloid And Smooth Muscle Cell Sting In Pulmonary Hypertension, Ann T Pham, Shiza Virk, Aline C Oliveira, Matthew D Alves, Chunhua Fu, Yutao Zhang, Jimena Alvarez-Castanon, Brian B Lee, Keira L Lee, Radwan Mashina, Katherine E Ray, Patrick Donabedian, Elnaz Ebrahimi, Harsh Patel, Reeha Patel, Duncan Lewis, Zhiguang Huo, Harry Karmouty-Quintana, Li Chen, Lei Jin, Andrew J Bryant

Faculty, Staff and Student Publications

There is an emerging role for stimulator of interferon genes (STING) signaling in pulmonary hypertension (PH) development. Related to this, prior research has demonstrated the relevance of immune checkpoint protein programmed death ligand 1 (PD-L1) expression by immunoregulatory myeloid cells in PH. However, there remains a need to elucidate the cell-specific role of STING expression, and the STING/PD-L1 signaling axis in PH, before readily available disease-modifying therapies can be applied for patients with the disease. Here, through generation of bone marrow chimeric mice, we show that STING-/- mice receiving WT bone marrow were protected against PH secondary to chronic hypoxia. …

Evaluating Large Language Models In Smart Mobility Based On Uncertainty Mathematical Methodologies, Mona Mohamed, Khalid Mohamed, Ahmed M. Abdelmouty

Sustainable Machine Intelligence Journal

The swift development of digital technologies, especially Large Language Models (LLMs), offers a revolutionary opportunity to improve urban mobility. LLMs are used widely in various areas, like traffic prediction, autonomous vehicle (AV) communication, and customized trip assistance. General speaking, users now consider the integration of LLMs in mobility to be intelligent friends. The study’s primary objective is to demonstrate how an integrated LLM in mobility services can significantly increase network efficiency, lessen congestion, and improve each traveler’s experience. Practically speaking, deploying a suitable LLM for providing various services to users is imperative. Additionally, this process is an endeavor due to …

The Co-Occurrence Of Autism Spectrum Disorder And Aarskog-Scott Syndrome In An Accomplished Young Man, Raisa S Romanova, Oksana I Talantseva, Katerina V Lind, Victoria A Manasevich, Julia E Kuznetsova, Elena L Grigorenko

Faculty, Staff and Students Publications

Objectives/Background: Aarskog-Scott syndrome (AAS), also known as faciogenital dysplasia, is a rare X-linked genetic disorder primarily characterized by its diverse physical manifestations. Previous evidence suggests a potential association between AAS and neurodevelopmental disorders, including autism spectrum disorder (ASD).

Methods: This case study presents a male adolescent with ASD and a novel genetic variant in FGD1 underlying AAS. We conducted comprehensive clinical, genetic, and behavioral assessments to characterize the neurodevelopmental presentation. Moreover, we examined the existing literature on AAS and comorbid neurodevelopmental disorders.

Results: The patient demonstrated features consistent with both AAS and ASD, presenting with characteristic physical features of AAS …

Psilocybin Treatment Extends Cellular Lifespan And Improves Survival Of Aged Mice, Kosuke Kato, Jennifer M Kleinhenz, Yoon-Joo Shin, Cristian Coarfa, Ali J Zarrabi, Louise Hecker

Faculty, Staff and Students Publications

Psilocybin, the naturally occurring psychedelic compound produced by hallucinogenic mushrooms, has received attention due to considerable clinical evidence for its therapeutic potential to treat various psychiatric and neurodegenerative indications. However, the underlying molecular mechanisms remain enigmatic, and few studies have explored its systemic impacts. We provide the first experimental evidence that psilocin (the active metabolite of psilocybin) treatment extends cellular lifespan and psilocybin treatment promotes increased longevity in aged mice, suggesting that psilocybin may be a potent geroprotective agent.

The Devil’S In The Details: Opposition To Demonology In Early Modern Europe, Abigail Pickard

The Purdue Historian

Common assumptions that believers of witchcraft in the early modern period were uneducated fanatics overgeneralize the complex interplay of early modern science and theology. The study of demons, known as demonology, was considered a science. It was a respected field that was studied and debated. Theologians scrutinized, defended, and revised demonological theories. Thinkers turned over foundational concepts and split hairs over the fine details of theology. Since educated scholars were considered authorities on demonology, they repeatedly wrote, talked, and theorized about the topic in a similar fashion to other ideologies of the early modern era. Due to this, authors of …