Life Sciences Commons^™

Neurenteric Cysts: A Neurosurgical Case Series And Treatment Perspectives, Defran Ercan, Walter Stummer, Maryam Khaleghi Ghadiri

BioMedicine

Neurenteric cysts (NC) are rare lesions of endodermal origin lined by mucin-secreting cuboidal or columnar epithelium of an intestinal or respiratory type. They occur more frequently spinally than cranially. From the radiological view, NC may be confused with other lesions of the central nervous system, like arachnoid or epidermoid cysts. However, due to advances in neuroimaging, there is an increasing trend in preoperative diagnosis of NC. We are reporting three cases of NC, each exhibiting markedly distinct symptoms and postoperative courses. The first patient, a 45year-old woman, had NC in the fourth ventricle. Although she underwent surgery, the lesion recurred …

A Staged-Olif Approach Can Minimize Construct Lengths In Adult Spinal Deformity- A Case Series And Literature Review, Guna Pratheep Kalanchiama, Alexander Shao-Rong Pang, Jacob Yoong-Leong Oh

BioMedicine

Background:

Adult Spinal Deformity (ASD) is one of the challenging conditions to treat for spine surgeons. One of the important dilemmas in the management of these patients is the decision on the number of levels of instrumentation and the overall length of the construct. OLIF has the advantage of providing a minimally invasive approach to address this complex pathology also allowing us to stage the procedure and thus help clinicians reassess if the patient requires an additional decompression, long fusion lengths, or need for osteotomies.

Aim:

Our study aims to evaluate the possibility of minimizing the construct length following a …

Cyclohexylamine, The Principal Metabolite Of Cyclamate, Contracts The Epididymal Vas Deferens Of Rats By Affecting Endogenous Catecholamine Release Via Postsynaptic Α1aand Presynaptic Α2-Adrenoceptors In A Calcium-Dependent Manner, Yuh-Fung Chen, Yu-Wen Wang, Huei-Yann Tsai

BioMedicine

Background: Cyclohexylamine (CHA) is a principal metabolite of cyclamate, which was once one of the most prominently consumed non-sugar sweeteners. Earlier studies suggested that long-term use of cyclamate might be carcinogenic and genotoxic; however, no consistent evidence supports an association between cyclamate and cancer risk. However, this issue remains interesting. Cyclamate can be metabolized to CHA by the intestinal bacteria in humans and some animals. Previous reports indicated CHA could induce atrophy of rat testes and affect rat fertility, as well as contract rat vas deferens. However, the contractile mechanisms of CHA on rat vas deferens remains poorly understood. This …

Nutraceutical Benefits And Neuro-Protective Potent Of Four Colored Peppers (Capsicum Annuum Var. Grossum), Ya-Chen Yang, Chih-Lung Lin, Mei-Chin Yin

BioMedicine

Background: Four colored peppers (Capsicum annuum var. grossum), orange, purple, yellow and red, are plant foods served as salad or stir-fry for meals in Taiwan and many countries.

Purpose: This study aimed to investigate the multiple nutraceutical properties of aqueous extracts prepared from colored peppers.

Methods: Vitamin C content and phytochemical profiles of these peppers were analyzed. In vitro effects of anti-oxidative, anti-a-amylase, anti-a-glucosidase, antilipase and anti-acetylcholinesterase (AchE) of pepper aqueous extracts at 0.25, 0.5 and 1 mg were evaluated. The neuronal protective potent of pepper aqueous extracts at 0.5 and 1 mg in high glucose treated nerve growth factor …

The Protective Role Of Astaxanthin Against Oxidative Stress And Inflammation In Peritoneal Dialysis Rats, Ratih Tri Kusuma Dewi, Bambang Purwanto, Brian Wasita, Vitri Widyaningsih

BioMedicine

Background: Prolonged exposure of peritoneal membrane to dialysate solution is known to cause fibrosis mediated by imbalanced inflammatory response and oxidative stress. In this context, proinflammatory cytokines including TGF-β and IL-1β, along with oxidative stress markers namely SOD and MDA, present in circulation, could serve as indicators of fibrosis. This phenomenon has the potential to interfere with the optimization of Chronic Kidney Disease (CKD) treatment. Other oral antioxidant supplements have been widely studied to prevent peritoneal damage, but investigations regarding Astaxanthin (AST) effect on fibrosis marked with proinflammatory cytokine are still limited.

Aims: This study aimed to investigate the protective …

Integrating Radiogenomics And Machine Learning In Musculoskeletal Oncology Care, Rahul Kumar, Kyle Sporn, Akshay Khanna, Phani Paladugu, Chirag Gowda, Alex Ngo, Ram Jagadeesan, Nasif Zaman, Alireza Tavakkoli

Department of Medicine Faculty Papers

Musculoskeletal tumors present a diagnostic challenge due to their rarity, histological diversity, and overlapping imaging features. Accurate characterization is essential for effective treatment planning and prognosis, yet current diagnostic workflows rely heavily on invasive biopsy and subjective radiologic interpretation. This review explores the evolving role of radiogenomics and machine learning in improving diagnostic accuracy for bone and soft tissue tumors. We examine integrating quantitative imaging features from MRI, CT, and PET with genomic and transcriptomic data to enable non-invasive tumor profiling. AI-powered platforms employing convolutional neural networks (CNNs) and radiomic texture analysis show promising results in tumor grading, subtype differentiation …

Structural And Functional Lessons Learned About Regulation Of Enterotoxigenic E. Coli Virulence Regulatory Factor, Rns, Jessica Dianne Tolbert

Dartmouth College Ph.D Dissertations

Antibiotic resistance has exacerbated the global health crisis of diarrheal diseases caused by enteric bacterial pathogens. Investigating pathogens, such as Enterotoxigenic Escherichia coli (ETEC) and Vibrio cholerae (cholera), helps to uncover mechanisms for the inhibition of virulence gene expression. A notable member of the AraC transcription factor family in ETEC, Rns, regulates virulence factors including pili and fimbriae, which are essential for adherence and colonization of the intestinal epithelial layer. This microbe–host interaction initiates the release of toxins, leading to the water and ion loss in clinically diagnosed as diarrhea.

In the canonical N-terminal domain of Rns, mutagenesis of the …

Tube-Feeding A Calf, Cheyenne Reid, Reganne K. Briggs, Melanie Heaton, Rebekah Esplin, David Secrist

All Current Publications

Producers may need to tube-feed a newborn calf to provide milk if calves are unable to nurse or suck from the nipple bottle or when calves are sick and need electrolytes. This fact sheet outlines the materials required and the steps to successfully tube-feed a calf.

Warming A Calf, Cheyenne Reid, Reganne K. Briggs, Melanie Heaton, Rebekah Esplin, David Secrist

All Current Publications

Calves born in the winter or spring are often exposed to harsh weather and environmental conditions. After birth, calves may become chilled due to cold temperatures or not being dried off promptly. A chilled calf may be experiencing hypothermia. This fact sheet explains the different types of hypothermia and methods for warming a calf until it can be safely returned outside.

Physiological And Biomechanical Responses To Indoor Cycling With And Without The Ability To Sway, Alina P. Swafford, James W. Navalta, Julia Freedman Silvernail, Nancy Lough, John A. Mercer

International Journal of Exercise Science

International Journal of Exercise Science 18(7): 531-542, 2025. The purpose of this study was to understand whether or not physiological and biomechanical measures were influenced by cycling sway and intensity. Participants (n=13; 24.9±6.5 years; 1.7±0.1 m; 64.7±11.2 kg) completed two submaximal-effort cycling conditions using a stationary smart bike placed on a rocker board: 1) cycling with the rocker board set to allow sway (unblocked); 2) cycling with blocks placed in the rocker board to prevent sway (blocked). The order conditions were counterbalanced, and each condition was 12-mins. For each condition, four intensity levels were completed. Prior to testing, target power …

The Role Of G6pd Variants And 3d Genomic Structure In The Development Of Pulmonary Hypertension, Christina M. Signoretti Ph.D.

NYMC Student Theses and Dissertations

Pulmonary hypertension is an under-recognized global health epidemic which is estimated to affect 1% of the population. It is associated with sustained mean pulmonary artery pressure greater than 20 mmHg, pulmonary artery remodeling, smooth muscle and endothelial cell proliferation and subsequent increased right ventricle hypertrophy due to increased afterload. Glucose-6-phosphate dehydrogenase (G6PD) is one of the key enzymes in the pentose phosphate pathway and has been previously linked to the development of pulmonary hypertension. G6PD deficiency is the most common human enzymopathy which affects approximately 400 million people worldwide and is a result of agricultural and epidemiological evolution in different …

Mechanisms Of Placental Impairment And The Upregulation Of Fetuin-B During Maternal Undernourishment, Mia Camilliere

NYMC Student Theses and Dissertations

Proper nutrition is crucial during pregnancy to support fetal and placental development. Failure to meet these nutritional needs can result in adverse health outcomes for both mother and baby. Despite its high prevalence in underdeveloped countries, maternal undernourishment is a public health issue worldwide. There are several possible causes of maternal undernourishment, and these can occur alone or in combination, such as poor access to nutrition, hyperemesis gravidarum, and drug use. This condition can adversely affect placental development and function to the extent of placental insufficiency, perturbing the entire pregnancy. The placenta is responsible not only for hormonally and physically …

Physical Activity And Body Image In Early Onset Cancer Patients, Madeleine Z. Pollard

Graduate Masters Theses

Abstract: Cancer is the leading cause of death among Americans under the age of 85 (Brown et al., 2012). There are increasing rates of cancer diagnoses in adults aged 18-49, which is described as an early onset (EO) diagnosis. Despite high survival rates (Lewis et al., 2021), EO cancer patients are at increased risk for long-term physical and psychological challenges associated with both the disease and its treatment (Haque et al., 2023). Cancer diagnosed during these critical periods of life can significantly impact self-perception and body image, which are critical to identity formation and quality of life (Castonguay, et al., …

Oregon State Rank Assessment For Clackamas Iris (Iris Tenuis), Nora Dunkirk

Institute for Natural Resources Publications

Oregon state conservation status assessment for Clackamas iris (Iris tenuis) using NatureServe methodology, 2025.

Oregon State Rank Assessment For Maritime Goldfields (Lasthenia Maritima), Nora Dunkirk, Gabriel E. Campbell

Institute for Natural Resources Publications

Oregon state conservation status assessment for maritime goldfields (Lasthenia maritima) using NatureServe methodology, 2025.

From Epidemics To Experimental Treatments: Amphibian Mass Mortality Events And A Potential Treatment For Chytridiomycosis, Daniel Callahan

Graduate Masters Theses

Worldwide, amphibian populations have experienced dramatic declines due to a variety of threats. Among them, disease has been particularly deleterious and continues to impact populations. In the United States and Canada, the three leading causes of amphibian mass mortality events are ranavirosis, chytridiomycosis, and severe perkinsea infection, all caused by infectious pathogens. While research and policy have helped populations recover from these diseases, more work needs to be done to develop practical and efficient treatments for these infections. Of these three diseases, chytridiomycosis has had the most devastating effects on amphibian populations globally. Caused by the chytrid fungi Batrachochytrium dendrobatidis …

Adaptation And Discovery In The Ethiopian Highlands: Testing Rules, Cryptic Shrews, And Patterns Of Montane Mammal Diversity, Evan W. Craig

Graduate Doctoral Dissertations

Montane landscapes of the Horn of Africa harbor exceptional but incompletely documented biodiversity. Focusing on rodents and shrews—the dominant but least studied of Ethiopia’s high-elevation fauna—this dissertation integrates repeat faunal surveys, genomic taxonomy, and phylogenetically informed modelling to clarify how small mammals distribute, diversify, and morphologically adapt across steep elevational gradients.

A century‐scale resurvey of Simien Mountains National Park (1927-2015) revealed significant upward range shifts for multiple species and a persistent mid-elevation richness peak, implicating warming temperatures as a driver of community reassembly. Museomics using genome-skimming and craniodental morphometrics subsequently uncovered a deeply divergent miniature shrew lineage within the Crocidura …

Oregon State Rank Assessment For Siskiyou Iris (Iris Bracteata), Nora Dunkirk

Institute for Natural Resources Publications

Oregon state conservation status assessment for Siskiyou iris (Iris bracteata) using NatureServe methodology, 2025.

Circulating Tumor Dna Monitoring And Blood Tumor Mutational Burden In Patients With Metastatic Solid Tumors Treated With Atezolizumab, Charles Swanton, Russell W Madison, Candice Francheska B Tambaoan, Funda Meric-Bernstam, Christopher J Sweeney, Razelle Kurzrock, Howard A Burris, David R Spigel, Hanna Tukachinsky, Jason Hughes, Julia Malato, Bongin Yoo, Tania Szado, Cheryl Schwab, Lincoln W Pasquina, Amaya Gasco, Katja Schulze, Claire F Friedman

Faculty, Staff and Student Publications

Immune checkpoint inhibitors are important for treatment across tumor types but are not universally effective in controlling disease. Early understanding of tumor response, or lack thereof, can inform treatment decisions. This study evaluates changes in circulating tumor DNA (ctDNA) and blood tumor mutational burden (bTMB) for associations with response to programmed cell death 1 ligand 1 (PD-L1) blockade. We sequenced cell-free DNA collected at the start of therapy, on treatment, and at the end of therapy for 153 patients treated with atezolizumab as part of the pan-tumor MyPathway study (NCT02091141). ctDNA tumor fraction (TF) and bTMB were assessed …

The Effects Of Morphine, Thc, And Lsd On Synaptic Plasticity Of The Ventral Tegmental Area, Michael Von Gunten

Theses and Dissertations

The brain is an intricate network of neurons that communicate via synapses. Synaptic plasticity, which is the ability to strengthen or weaken synaptic connections, plays a key role in learning, memory, and reward learning. Disruptions to synaptic plasticity play a central role in addiction, particularly in brain circuits involved in reward and motivation. The mesolimbic reward system, which includes the ventral tegmental area (VTA) and its dopaminergic projections, is a primary target of drugs of abuse, including opioids and cannabinoids. However, the physiological consequences of combined exposure to opioids and cannabinoids and the potential for psychedelics to reverse drug-induced neuroadaptations …

Structural And Functional Characterization Of Sos Pathway Genes (Sos1, Sos2, Sos3) In Avicennia Marina: Insights Into Salinity Stress Tolerance, Mariam Obaid Alzaabi

Thesis/ Dissertation Defenses

Abiotic stress is a major challenge for agricultural productivity. Salinity stress is a vital environmental constraint that significantly limits plant growth and reduce crop yield worldwide. Halophytes, such as Avicennia marina, offer unique opportunities to dissect adaptive mechanisms underlying salt tolerance. This study focuses on the structural and functional characterization of the Salt Overly Sensitive (SOS) pathway genes (SOS1, SOS2, SOS3) from A. marina. Full-length cDNAs of AmSOS1, AmSOS2, and AmSOS3 were cloned and characterized. The sequecne analysis of these genes compared to the respective orthologs revealed high similarities and conservation of all important domains. For AmSOS1 and AmSOS3, one …

Protein Word Detection Using Text Segmentation Techniques, Ashish V. Tendulkar, Sutanu Chakraborti, Ganesh Devi

Journal of Global Awareness

Literature in Molecular Biology is abundant with linguistic metaphors. There has been works in the past that attempt to draw parallels between linguistics and biology, driven by the fundamental premise that proteins have a language of their own. Since word detection is crucial to the decipherment of any unknown language, we attempt to establish a problem mapping from natural language text to protein sequences at the level of words. Towards this end, we explore the use of an unsupervised text segmentation algorithm for the task of extracting "biological words” from protein sequences. We demonstrate the effectiveness of using domain knowledge …

Histodx: Revolutionizing Breast Cancer Diagnosis Through Advanced Imaging Techniques, Wishal Arshad, Tehreem Masood, H. M. Shahzad, Hassan A. Ahmed, Syed Hamza Ahmed, Hafiz Muhammad Tayyab Khushi

Business Faculty Publications

Breast cancer is the second leading cause of mortality among women worldwide, highlighting the need for efficient histopathology-based screening methods for early diagnosis. This study introduces HistoDX, a deep learning framework to classify Invasive Ductal Carcinoma (IDC) using 277,524 histopathology image patches (50x50 pixels) from Paul Mooney’s IDC dataset on Kaggle, comprising No Cancer and IDC(+) classes. HistoDX employs a preprocessing pipeline with normalization, data augmentation, and class balancing via oversampling and weighted loss to address the class imbalance. A customized convolutional neural network, built on EfficientNetV2-B3 with additional layers, achieves 97% accuracy and a 0.91 ROC-AUC score on the …

Histodx: Revolutionizing Breast Cancer Diagnosis Through Advanced Imaging Techniques, Wishal Arshad, Thhreem Masrood, H. M. Shahzhad, Hassan A. Ahmed, Syed Hamza Ahmed, Hafiz Muhammad Tayyab Khushi

Business Faculty Publications

Breast cancer is the second leading cause of mortality among women worldwide, highlighting the need for efficient histopathology-based screening methods for early diagnosis. This study introduces HistoDX, a deep learning framework to classify Invasive Ductal Carcinoma (IDC) using 277,524 histopathology image patches ( 50×50 pixels) from Paul Mooney’s IDC dataset on Kaggle, comprising No Cancer and IDC(+) classes. HistoDX employs a preprocessing pipeline with normalization, data augmentation, and class balancing via oversampling and weighted loss to address the class imbalance. A customized convolutional neural network, built on EfficientNetV2-B3 with additional layers, achieves 97% accuracy and a 0.91 ROC-AUC score on …

Inactivation Of Aerosolized Hepatitis A Viral Droplets On Food Contact Surfaces By Ultraviolet-Light-Emitting Diodes At 255 Nm And 279 Nm, Breanna Polen, Ankit Patras, Brahmaiah Pendyala, Doris H. D’Souza

Food and Animal Sciences Faculty Research

Hepatitis A viral outbreaks continue to occur. It can be transmitted through aerosolized droplets and thus can contaminate surfaces and the environment. Ultraviolet light emitting diode (UV-C LED) systems are used for inactivation of microbes, though research is needed to determine optimal doses for aerosolized HAV inactivation. This study evaluates the UV-C LED doses for the inactivation of aerosolized hepatitis A virus (HAV) deposited on stainless-steel and glass discs. HAV was aseptically deposited onto stainless-steel or glass discs (1.27 cm diameter) using a nebulizer within a chamber followed by treatments for up to 1.5 min with 255 nm (surface dose …

A Hyperspectral Approach For Retrieving Inherent Optical Properties, Phytoplankton Pigments, And Associated Uncertainties From Non-Water Absorption, Brice K. Grunert, Audrey Ciochetto, Colleen Mouw

Biological, Geological, and Environmental Faculty Publications

Aquatic ecosystems and associated biogeochemical cycles are dynamic and driven by spatiotemporally diverse processes, including increasing impacts from more extreme weather and climate-related stressors. Ocean color datasets collected by airborne and satellite sensors provide platforms capable of observing distinct ecosystem features at requisite spatial and temporal scales; however, many of the tools used, including novel tools developed for hyperspectral datasets, rely on assumptions to retrieve component optical properties that are tied to specific ecosystem traits, such as phytoplankton pigments and spectral features affiliated with carbon concentration and composition. The original Derivative Analysis and Iterative Spectral Evaluation of Absorption (DAISEA) algorithm …

Advancing Butterfly Systematics Through Genomic Analysis, Jing Zhang, Qian Cong, Jinhui Shen, Leina Song, Nick V. Grishin

The Taxonomic Report of the International Lepidoptera Survey

Within the framework of an ongoing comparative genomic study of global butterfly diversity, we construct phylogenetic trees combining all protein-coding genes assembled from the whole genome shotgun data. When viewed in the context of current taxonomy and phenotypic knowledge, the genome-wide phylogeny points to further advances in butterfly systematics, which are presented here. We assign major clades with comparable levels of genetic divergence to the same taxonomic rank and apply criteria involving relative population divergence and gene flow to define species boundaries. As a result, one genus, 13 subgenera, 62 species, and five subspecies are proposed as new (type species …

Investigating Genes Associated With Oncogenic Pka Activity In Fibrolamellar Carcinoma, Ananya Singh

Undergraduate Honors Theses

Fibrolamellar Carcinoma (FLC) is a rare liver cancer, predominantly affecting younger individuals with no history of primary liver disease. As FLC comprises only < 1% of all liver tumors, our understanding of its development and treatment are extremely limited. All clinical cases of FLC contain a specific DNAJB1-PRKACA fusion. The mutation produces an oncogenic form of Protein Kinase A (PKA), known as DNAJ-PKAc, with enhanced binding activity compared to wild-type PKA. Specifically, DNAJ-PKAc interacts with different substrates than wild type PKA, affecting downstream signaling pathways to promote cancer development. However, the genetic dependencies that result from oncogenic DNAJ-PKAc signaling are not known. In this paper, I will show the process of performing a genome-wide CRISPRi screen in AML12DNAJ-PKAc cells to identify genes associated with oncogenic DNAJ-PKAc signaling. I will detail the preliminary benchmarking experiments, the screening process, the preparation of genomic DNA for sequencing, and the ongoing validation of screen results. I anticipate that this project will discover genes whose knockdown inhibits oncogenic DNAJ-PKAc signaling and reduces cell growth exclusively in the presence of PKA. The identified genes could represent potential therapeutic targets for cancer drugs that inhibit FLC progression. However, additional research is necessary to characterize their interactions with DNAJ-PKAc and their specific role in FLC development.

Evaluating The Protective Role Of Epo-R76e In Oxidative Stress-Induced Cell Death In Retinal Pigment Epithelium, Jemima Alam

USF Tampa Graduate Theses and Dissertations

Age-Related Macular Degeneration (AMD) causes dysfunction and loss of Retinal pigment epithelium (RPE). The degeneration and death of RPE cells causes irreversible visual impairment. Oxidative stress is a widely accepted triggering factor for RPE dysfunction. A hormone called Erythropoietin (EPO) is responsible to facilitate the erythropoiesis process, prevents progenitor cells from apoptosis and protects photoreceptors downregulating retinal degeneration. In this study, we aim to elucidate the role of EPO in downregulating oxidative stress in RPE. It is hypothesized that EPO will have a positive impact on suppressing oxidative stress and ferroptosis-mediated RPE degeneration due to its vital role in apoptosis …

Proteomic Investigation Of Aging And Omega-3 Supplementation In Rat Skeletal Muscle, Francesco Maria Del Re, David W. Russ, Kalina P. Dimova, Stylianos P. Scordilis

Biological Sciences: Faculty Publications

Aging is a pan-organ process with an intricate and multimodal nature. Deciphering the aging phenomenon is complex, yet recent attention is analyzing the potential benefits of non-invasive life adjustments to achieve healthy aging. Omega-3 polyunsaturated fatty acids (FA) have emerged as promising nutraceuticals for a plethora of different medical conditions. In the current study we conducted an in-depth, bottom-up, global, shotgun proteomic study (LC-MS/MS) investigating both the effects of aging on skel- etal muscle and the potential alterations due to ω-3 FA. Sprague Dawley rats were fed different diets and divided into four groups (n = 5 per group): adult …