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Feasibility Of Oil Palm Agroforestry System: Evaluating The Application Of Oil Palm Ash For Enhancing Cherry Tomato (Solanum Lycopersicum. Var. Nancy Rz) Production Using Brackish Water., Ime Joseph Bassey Jun 2024

Feasibility Of Oil Palm Agroforestry System: Evaluating The Application Of Oil Palm Ash For Enhancing Cherry Tomato (Solanum Lycopersicum. Var. Nancy Rz) Production Using Brackish Water., Ime Joseph Bassey

Theses and Dissertations

Monoculture systems of oil palm production are ravaging the world’s tropical forests, causing deforestation and biodiversity loss, which contribute to climate change at an uncontrollable pace. Oil palm agroforestry systems (AFSs), one of the strategies of regenerative agriculture, have proven to reverse the unfavorable effects of the oil palm monoculture systems. A sustainable means of soil fertilization and irrigation must be explored to improve the feasibility of oil palm AFSs. This study evaluates the impact of the application of oil palm ash and brackish irrigation on cherry tomato production. The experiment was conducted in a hydroponic system using a 2*4 …


Winter Gps Tagging Reveals Home Ranges During The Breeding Season For A Borealnesting Migrant Songbird, The Goldencrowned Sparrow, Autumn R. Iverson, Diana L. Humple, Renée L. Cromier, Thomas P. Hahn, Theadora A. Block, Daizaburo Shizuka, Bruce E. Lyon, Alexis S. Chaine, Emily J. Hudson, Elisha M. Hull Jun 2024

Winter Gps Tagging Reveals Home Ranges During The Breeding Season For A Borealnesting Migrant Songbird, The Goldencrowned Sparrow, Autumn R. Iverson, Diana L. Humple, Renée L. Cromier, Thomas P. Hahn, Theadora A. Block, Daizaburo Shizuka, Bruce E. Lyon, Alexis S. Chaine, Emily J. Hudson, Elisha M. Hull

School of Biological Sciences: Faculty Publications

Determining space use for species is fundamental to understanding their ecology, and tracking animals can reveal insights into their spatial ecology on home ranges and territories. Recent technological advances have led to GPS-tracking devices light enough for birds as small as ~30 g, creating novel opportunities to remotely monitor fine-scale movements and space use for these smaller species. We tested whether miniaturized GPS tags can allow us to understand space use of migratory birds away from their capture sites and sought to understand both pre-breeding space use as well as territory and habitat use on the breeding grounds. We used …


Differential Effects Of Social Media On Body Esteem: An Ecological Momentary Assessment On Weight Satisfaction And Muscularity Importance, Megan Van Alfen Brown Jun 2024

Differential Effects Of Social Media On Body Esteem: An Ecological Momentary Assessment On Weight Satisfaction And Muscularity Importance, Megan Van Alfen Brown

Theses and Dissertations

This study investigated how social media use is related to body esteem (particularly weight satisfaction and muscularity importance) in adolescents. We conducted a 17-day Ecological Momentary Assessment study among 183 adolescents (12–17 years, 58% girls). Each adolescent reported on his/her social media use, weight satisfaction, and muscularity importance four times per day (68 assessments per participant; 6,863 completed in total). Using a person-specific, N=1 method of analysis (Dynamic Structural Equation Modeling), we found that at the between-person level, social media use is not associated with lower satisfaction with one’s weight and greater importance of looking masculine. At the within-person level, …


Zinc Oxide Nanostructures Synthesized By Hot Water Treatment For The Photocatalytic Degradation Of Organic Pollutants In Water, Ranjitha Kumarapuram Hariharalakshmanan Jun 2024

Zinc Oxide Nanostructures Synthesized By Hot Water Treatment For The Photocatalytic Degradation Of Organic Pollutants In Water, Ranjitha Kumarapuram Hariharalakshmanan

Theses and Dissertations

Photocatalysis using nanostructured semiconductors for the degradation of organic pollutants has received significant attention as an advanced water treatment method. A photocatalyst absorbs light with energy greater than or equal to its band gap and generates electron-hole pairs. These electrons and holes take part in redox reactions in water to generate reactive oxygen species, such as hydroxyl radicals and superoxide anions, which can break down organic contaminants. However, this method has some challenges, such as electron-hole recombination, which reduces the efficiency, high cost of nanostructure synthesis, and reduced durability of nanostructured photocatalysts in suspension form. The immobilization of photocatalyst nanostructures …


A Trna Modification Pattern That Facilitates Interpretation Of The Genetic Code, Isao Masuda, Ya-Ming Hou Jun 2024

A Trna Modification Pattern That Facilitates Interpretation Of The Genetic Code, Isao Masuda, Ya-Ming Hou

Department of Biochemistry and Molecular Biology Faculty Papers

Interpretation of the genetic code from triplets of nucleotides to amino acids is fundamental to life. This interpretation is achieved by cellular tRNAs, each reading a triplet codon through its complementary anticodon (positions 34–36) while delivering the amino acid charged to its 3′-end. This amino acid is then incorporated into the growing polypeptide chain during protein synthesis on the ribosome. The quality and versatility of the interpretation is ensured not only by the codon-anticodon pairing, but also by the post-transcriptional modifications at positions 34 and 37 of each tRNA, corresponding to the wobble nucleotide at the first position of the …


In The Matter Of J.B V. Eighth Jud. Dist., 140 Nev. Adv. Op. 39 (June 12, 2024), Aaron Kempf Jun 2024

In The Matter Of J.B V. Eighth Jud. Dist., 140 Nev. Adv. Op. 39 (June 12, 2024), Aaron Kempf

Nevada Supreme Court Summaries

The Nevada Supreme Court clarified that blood relatives alone are not the only persons considered for child placement. In 2021, NRS 432B.0657 was introduced to expand statutory placement preference to include fictive kin, persons who are not related to the child by blood but have “a significant emotional and positive relationship with the child.” The Court explained that “fictive kin” requires evaluating the relationship from the perspective of both the child and the adult, emphasizing that blood relatives do not have legal placement preference over fictive kin.” Further, the Court stressed that “placement decisions must be based on a child’s …


Rest-Dependent Downregulation Of Von Hippel-Lindau Tumor Suppressor Promotes Autophagy In Shh-Medulloblastoma, Ashutosh Singh, Donghang Cheng, Jyothishmathi Swaminathan, Yanwen Yang, Yan Zheng, Nancy Gordon, Vidya Gopalakrishnan Jun 2024

Rest-Dependent Downregulation Of Von Hippel-Lindau Tumor Suppressor Promotes Autophagy In Shh-Medulloblastoma, Ashutosh Singh, Donghang Cheng, Jyothishmathi Swaminathan, Yanwen Yang, Yan Zheng, Nancy Gordon, Vidya Gopalakrishnan

Faculty, Staff and Student Publications

The RE1 silencing transcription factor (REST) is a driver of sonic hedgehog (SHH) medulloblastoma genesis. Our previous studies showed that REST enhances cell proliferation, metastasis and vascular growth and blocks neuronal differentiation to drive progression of SHH medulloblastoma tumors. Here, we demonstrate that REST promotes autophagy, a pathway that is found to be significantly enriched in human medulloblastoma tumors relative to normal cerebella. In SHH medulloblastoma tumor xenografts, REST elevation is strongly correlated with increased expression of the hypoxia-inducible factor 1-alpha (HIF1α)-a positive regulator of autophagy, and with reduced expression of the von Hippel-Lindau (VHL) tumor suppressor protein - a …


Germ Cell Tumor Of The Testis: Lethal Subtypes Of A Curable Cancer, Jamaal C Jackson, Darren Sanchez, Andrew C Johns, Matthew T Campbell, Ahmet M Aydin, Neriman Gokden, Sanjay Maraboyina, Jason L Muesse, John F Ward, Louis L Pisters, Niki M Zacharias, Charles C Guo, Shi-Ming Tu Jun 2024

Germ Cell Tumor Of The Testis: Lethal Subtypes Of A Curable Cancer, Jamaal C Jackson, Darren Sanchez, Andrew C Johns, Matthew T Campbell, Ahmet M Aydin, Neriman Gokden, Sanjay Maraboyina, Jason L Muesse, John F Ward, Louis L Pisters, Niki M Zacharias, Charles C Guo, Shi-Ming Tu

Faculty, Staff and Student Publications

Germ cell tumor of the testis (GCT) is a curable cancer even when it is widely metastatic; however, outcomes can differ based on tumor histology. Chemo-resistance in certain phenotypes, such as teratoma and yolk sac tumor, contributes to poor clinical outcomes in some patients with GCT. Despite this resistance to S-YSTemic therapy, many of these tumor subtypes remain amenable to surgical resection and possible cure. In this study, we report on a series of seven patients highlighting two chemo-resistant subtypes of nonseminomatous germ cell tumor (NSGCT), sarcomatoid yolk sac tumor (S-YST), and epithelioid trophoblastic tumor (ETT) for which early resection …


How To Mitigate The Risks Of Deployment Of Artificial Intelligence In Medicine?, Sevi̇l Uygun İli̇khan, Mahmut Özer, Hande Tanberkan, Veysel Bozkurt Jun 2024

How To Mitigate The Risks Of Deployment Of Artificial Intelligence In Medicine?, Sevi̇l Uygun İli̇khan, Mahmut Özer, Hande Tanberkan, Veysel Bozkurt

Turkish Journal of Medical Sciences

The aim of this study is to examine the risks associated with the use of artificial intelligence (AI) in medicine and to offer policy suggestions to reduce these risks and optimize the benefits of AI technology. Artificial intelligence is a multifaceted technology. If harnessed effectively, it has the capacity to significantly impact the future of humanity in the field of health, as well as in several other areas. However, the rapid spread of this technology also raises significant ethical, legal, and social issues. This study examines the potential dangers of AI integration in medicine by reviewing current scientific work and …


Changes In Blink Reflex After Simultaneous Supraorbital And Mental Nerve Stimulations In Healthy Subjects, Ayşegül Gündüz, Tuba Cerrahoğlu Şi̇ri̇n, Pinar Bekdi̇k Şi̇ri̇nocak, Tuba Akinci, Burcu Nuran Arkali, Fatma Candan, Meral E. Kiziltan Jun 2024

Changes In Blink Reflex After Simultaneous Supraorbital And Mental Nerve Stimulations In Healthy Subjects, Ayşegül Gündüz, Tuba Cerrahoğlu Şi̇ri̇n, Pinar Bekdi̇k Şi̇ri̇nocak, Tuba Akinci, Burcu Nuran Arkali, Fatma Candan, Meral E. Kiziltan

Turkish Journal of Medical Sciences

Background/aim: In this study, we investigated the blink reflex (BR) after simultaneous and asynchronous stimulation of two trigeminal nerve branches. The objective was to characterize the physiology of trigeminal and facial circuits.Materials and methods: We performed three sets of experiments: recording BR response i. after supraorbital nerve stimulation (SON), after mental nerve stimulation (MN), and after simultaneous SON and MN stimulation (SON+MN) in 18 healthy individuals; ii. after MN (at an intensity eliciting BR response) preceding SON at various interstimulus intervals (ISIs) in seven healthy subjects; iii after MN (at sensory threshold) preceding SON at various ISIs. We compared the …


Patterns Of Longitudinal Subcortical Atrophy Over One Year In Amnestic Mild Cognitive Impairment And Its Impact On Cognitive Performance: A Preliminary Study, Berri̇n Çavuşoğlu, Duygu Hünerli̇, Derya Durusu Emek Savaş, Görsev Yener, Emel Ada Jun 2024

Patterns Of Longitudinal Subcortical Atrophy Over One Year In Amnestic Mild Cognitive Impairment And Its Impact On Cognitive Performance: A Preliminary Study, Berri̇n Çavuşoğlu, Duygu Hünerli̇, Derya Durusu Emek Savaş, Görsev Yener, Emel Ada

Turkish Journal of Medical Sciences

Background/aim: Amnestic mild cognitive impairment (aMCI) is a risk factor for dementia, and thus, it is of interest to enlighten specific brain atrophy patterns in aMCI patients. We aim to define the longitudinal atrophy pattern in subcortical structures and its effect on cognition in patients with aMCI.Materials and methods: Twenty patients with aMCI and 20 demographically matched healthy controls with baseline and longitudinal structural magnetic resonance imaging scans and neuropsychological assessments were studied. The algorithm FIRST (FMRIB’s integrated registration and segmentation tool) was used to obtain volumes of subcortical structures (thalamus, putamen, caudate nucleus, nucleus accumbens, globus pallidus, hippocampus, and …


Impact Of Celiac Disease In Behçet’S Syndrome Patients: A Study Based On The Database Of Türkiye, Nuray Yilmaz Çakmak, Nai̇m Ata, Serdar Can Güven, Emi̇n Gemci̇oğlu, Mustafa Mahi̇r Ülgü, Şuayi̇p Bi̇ri̇nci̇ Jun 2024

Impact Of Celiac Disease In Behçet’S Syndrome Patients: A Study Based On The Database Of Türkiye, Nuray Yilmaz Çakmak, Nai̇m Ata, Serdar Can Güven, Emi̇n Gemci̇oğlu, Mustafa Mahi̇r Ülgü, Şuayi̇p Bi̇ri̇nci̇

Turkish Journal of Medical Sciences

Background/Aim Our primary aim was to investigate the effects of concomitant celiac disease (CD) on the clinical characteristics of Behçet’s syndrome (BS) patients. Materials and method The study was a retrospective, nationwide, multi-center study. Turkish Ministry of Health National Electronic Database (e-Nabız) is used under Health Ministry's supervision to extract the subject's data. Statistical Analysis Statistical analyses were made by the Statistical Package for Social Sciences (SPSS) software version 20 (IBM Corp., Armonk, New York). Continuous variables were presented by mean ± standard derivation (SD) or median (min–max) according to normality and compared by student-T test. Results A total of …


Sting Activation Increases The Efficiency Of Temozolomide In Pten Harbouring Glioblastoma Cells, Zafer Yildirim, Eda Doğan, Hale Güler Kara, Buket Kosova, Vi̇ldan Bozok Jun 2024

Sting Activation Increases The Efficiency Of Temozolomide In Pten Harbouring Glioblastoma Cells, Zafer Yildirim, Eda Doğan, Hale Güler Kara, Buket Kosova, Vi̇ldan Bozok

Turkish Journal of Medical Sciences

Background/aim: Glioblastoma is one of the most aggressive tumours, resistant to all applied therapy regiments and prone to relapse. Median survival rates are therefore only expressed as months. STING agonists are immunomodulatory molecules that activate type I interferon expression, making them potentially useful in regulating the tumour microenvironment. Since PTEN serves as a critical phosphatase in activating interferon-regulating transcription factors and is frequently mutated in glioblastoma cells, this study aimed to investigate STING activation in glioblastoma cell lines, examining whether they harbour the PTEN protein or not.°Materials and methods: T98G and U118MG glioblastoma cell lines were treated with the 2ʹ3ʹ-c-di-AM(PS)2(Rp,Rp) …


The Effect Of Phototherapy Treatment On Serum Melatonin Levels In Term Newborns, Ali̇ Bülbül, İlkay Özmeral Odabaşi, Duygu Besni̇li̇ Açar, Semra Ti̇ryaki̇ Demi̇r Jun 2024

The Effect Of Phototherapy Treatment On Serum Melatonin Levels In Term Newborns, Ali̇ Bülbül, İlkay Özmeral Odabaşi, Duygu Besni̇li̇ Açar, Semra Ti̇ryaki̇ Demi̇r

Turkish Journal of Medical Sciences

Background/aim: The aim of this study was to investigate the effect of phototherapy treatment on serum melatonin levels in term newborn infants. Material and methods: This study was planned as a single-center, prospective, observational, case-control study. Term infants (gestation week ≥37 weeks) who received at least 6 h of phototherapy due to jaundice constitute the phototherapy group, while the term infants without jaundice and who were exclusively breastfed constitute the control group. Melatonin levels were examined by taking blood samples from babies in both groups at 02:00 at night. Melatonin values were compared between groups. The effect of phototherapy on …


Implementing Profiling To Boost Vaccination Uptake Among Nurses And Nursing Students: A Machine Learning Approach, Nursing Impact Project, Marco Tomietto, Giancarlo Cicolini, Kristina Mikkonen, Michelle Croston Jun 2024

Implementing Profiling To Boost Vaccination Uptake Among Nurses And Nursing Students: A Machine Learning Approach, Nursing Impact Project, Marco Tomietto, Giancarlo Cicolini, Kristina Mikkonen, Michelle Croston

Sigma Foundation for Nursing Research Grant Reports

This project aims to identify the underlying patterns of nurses' and nursing students' vaccination hesitancy at the international level. The project also aims to compare countries to support the design of tailored vaccination campaigns in healthcare organizations, to improve vaccination uptake and patient safety.


Emergent Magnetism And Hyperthermia In Phase- And Size-Tunable Iron Oxide Nanostructures, K Mudiyanselage Tharindu Supun Bandara Attanayake Jun 2024

Emergent Magnetism And Hyperthermia In Phase- And Size-Tunable Iron Oxide Nanostructures, K Mudiyanselage Tharindu Supun Bandara Attanayake

USF Tampa Graduate Theses and Dissertations

Iron oxide nanoparticles (IONPs) hold immense potential across diverse fields, from spintronics, magnetic hyperthermia to drug delivery, biodetection, and magnetic resonance imaging. Unlocking these applications hinges on our ability to tailor the magnetic properties of IONPs, and this dissertation presents novel and powerful approaches for enhancing magnetic and hyperthermic responses of multiphase iron oxide nanostructures. This is achieved by manipulating their phase volume fraction, size, and shape with a focus on the magnetic tunability of nanostructures via strategic control over structural and environmental parameters. The aforementioned has been achieved by the following three key approaches: (i) phase-tunability of iron oxide …


Digital Twin Mathematical Models Suggest Individualized Hemorrhagic Shock Resuscitation Strategies, Jeremy W Cannon, Danielle S Gruen, Ruben Zamora, Noah Brostoff, Kelly Hurst, John H Harn, Fayten El-Dehaibi, Zhi Geng, Rami Namas, Jason L Sperry, John B Holcomb, Bryan A Cotton, Jason J Nam, Samantha Underwood, Martin A Schreiber, Kevin K Chung, Andriy I Batchinsky, Leopoldo C Cancio, Andrew J Benjamin, Erin E Fox, Steven C Chang, Andrew P Cap, Yoram Vodovotz Jun 2024

Digital Twin Mathematical Models Suggest Individualized Hemorrhagic Shock Resuscitation Strategies, Jeremy W Cannon, Danielle S Gruen, Ruben Zamora, Noah Brostoff, Kelly Hurst, John H Harn, Fayten El-Dehaibi, Zhi Geng, Rami Namas, Jason L Sperry, John B Holcomb, Bryan A Cotton, Jason J Nam, Samantha Underwood, Martin A Schreiber, Kevin K Chung, Andriy I Batchinsky, Leopoldo C Cancio, Andrew J Benjamin, Erin E Fox, Steven C Chang, Andrew P Cap, Yoram Vodovotz

Faculty, Staff and Student Publications

Background: Optimizing resuscitation to reduce inflammation and organ dysfunction following human trauma-associated hemorrhagic shock is a major clinical hurdle. This is limited by the short duration of pre-clinical studies and the sparsity of early data in the clinical setting.

Methods: We sought to bridge this gap by linking preclinical data in a porcine model with clinical data from patients from the Prospective, Observational, Multicenter, Major Trauma Transfusion (PROMMTT) study via a three-compartment ordinary differential equation model of inflammation and coagulation.

Results: The mathematical model accurately predicts physiologic, inflammatory, and laboratory measures in both the porcine model and patients, as well …


Chemical Herding As A Multiplicative Factor For Top-Down Manipulation Of Colloids, Mark N. Mcdonald, Douglas R. Tree, Cameron K. Peterson Jun 2024

Chemical Herding As A Multiplicative Factor For Top-Down Manipulation Of Colloids, Mark N. Mcdonald, Douglas R. Tree, Cameron K. Peterson

Faculty Publications

Colloidal particles can create reconfigurable nanomaterials, with applications such as color-changing, self-repairing, and self-regulating materials and reconfigurable drug delivery systems. However, top-down methods for manipulating colloids are limited in the scale they can control. We consider here a new method for using chemical reactions to multiply the effects of existing top-down colloidal manipulation methods to arrange large numbers of colloids with single-particle precision, which we refer to as chemical herding. Using simulation-based methods, we show that if a set of chemically active colloids (herders) can be steered using external forces (i.e., electrophoretic, dielectrophoretic, magnetic, or optical forces), then a larger …


Self-Determination Towards Regular Exercise Relates To Quality Of Life In Female College Students With At Least One Child, Toby Khung Chilai Roylance Jun 2024

Self-Determination Towards Regular Exercise Relates To Quality Of Life In Female College Students With At Least One Child, Toby Khung Chilai Roylance

Theses and Dissertations

Inspired by one of my daughters, Rachel Tam, and her journeys through motherhood while pursuing an MBA at Brigham Young University, this study was conceived from observing her struggle to balance academic responsibilities, motherhood, being a wife, and prenatal care. Her experience highlighted the significance of self-directed physical activity (PA) for young mothers pursuing higher education in a religious institution. This study explores the dynamics of PA, motivation, and well-being among 264 college-attending mothers from Brigham Young University Provo and BYU-Pathway Worldwide. These participants were selected from an online survey pool of over 1,500 female student respondents. All mothers in …


Digital Twin Mathematical Models Suggest Individualized Hemorrhagic Shock Resuscitation Strategies, Jeremy W Cannon, Danielle S Gruen, Ruben Zamora, Noah Brostoff, Kelly Hurst, John H Harn, Fayten El-Dehaibi, Zhi Geng, Rami Namas, Jason L Sperry, John B Holcomb, Bryan A Cotton, Jason J Nam, Samantha Underwood, Martin A Schreiber, Kevin K Chung, Andriy I Batchinsky, Leopoldo C Cancio, Andrew J Benjamin, Erin E Fox, Steven C Chang, Andrew P Cap, Yoram Vodovotz Jun 2024

Digital Twin Mathematical Models Suggest Individualized Hemorrhagic Shock Resuscitation Strategies, Jeremy W Cannon, Danielle S Gruen, Ruben Zamora, Noah Brostoff, Kelly Hurst, John H Harn, Fayten El-Dehaibi, Zhi Geng, Rami Namas, Jason L Sperry, John B Holcomb, Bryan A Cotton, Jason J Nam, Samantha Underwood, Martin A Schreiber, Kevin K Chung, Andriy I Batchinsky, Leopoldo C Cancio, Andrew J Benjamin, Erin E Fox, Steven C Chang, Andrew P Cap, Yoram Vodovotz

Faculty, Staff and Student Publications

BACKGROUND: Optimizing resuscitation to reduce inflammation and organ dysfunction following human trauma-associated hemorrhagic shock is a major clinical hurdle. This is limited by the short duration of pre-clinical studies and the sparsity of early data in the clinical setting.

METHODS: We sought to bridge this gap by linking preclinical data in a porcine model with clinical data from patients from the Prospective, Observational, Multicenter, Major Trauma Transfusion (PROMMTT) study via a three-compartment ordinary differential equation model of inflammation and coagulation.

RESULTS: The mathematical model accurately predicts physiologic, inflammatory, and laboratory measures in both the porcine model and patients, as well …


Small Rna Signatures Of Acute Ischemic Stroke In L1cam Positive Extracellular Vesicles, Bharti Manwani, Nivetha Brathaban, Abiya Baqai, Yashee Munshi, Hilda W Ahnstedt, Mengqi Zhang, Kajsa Arkelius, Ted Llera, Edilberto Amorim, Fanny M Elahi, Neel S Singhal Jun 2024

Small Rna Signatures Of Acute Ischemic Stroke In L1cam Positive Extracellular Vesicles, Bharti Manwani, Nivetha Brathaban, Abiya Baqai, Yashee Munshi, Hilda W Ahnstedt, Mengqi Zhang, Kajsa Arkelius, Ted Llera, Edilberto Amorim, Fanny M Elahi, Neel S Singhal

Faculty, Staff and Student Publications

L1CAM-positive extracellular vesicles (L1EV) are an emerging biomarker that may better reflect ongoing neuronal damage than other blood-based biomarkers. The physiological roles and regulation of L1EVs and their small RNA cargoes following stroke is unknown. We sought to characterize L1EV small RNAs following stroke and assess L1EV RNA signatures for diagnosing stroke using weighted gene co-expression network analysis and random forest (RF) machine learning algorithms. Interestingly, small RNA sequencing of plasma L1EVs from patients with stroke and control patients (n = 28) identified micro(mi)RNAs known to be enriched in the brain. Weighted gene co-expression network analysis (WGCNA) revealed small RNA …


Codesign Principles For The Effective Development Of Digital Heritage Extended Reality Systems For Health Interventions In Rural Communities, Alejandro Veliz Reyes, Marius N. Varga, Hannah Bradwell, Rory Baxter, Ray B. Jones, Daniel Maudlin Jun 2024

Codesign Principles For The Effective Development Of Digital Heritage Extended Reality Systems For Health Interventions In Rural Communities, Alejandro Veliz Reyes, Marius N. Varga, Hannah Bradwell, Rory Baxter, Ray B. Jones, Daniel Maudlin

School of Art, Design and Architecture

We present a methodological, theoretical, and technological outline of codesign principles for the effective development of digital heritage extended reality systems for health and care. The paper is based on two large-scale research projects involving ageing in rural and coastal communities, focused on the codesign of extended reality systems to stimulate new forms of access to local heritage sites with potential impact on health outcomes. Our approach stems from a multi-disciplinary collaboration between health, digital design, and heritage specialists, and suggests ways to reconcile diverging forms of knowledge production, such as our ‘researcher in residence’ methodology and the place-based complexities …


Hidden Scientists/Hidden Creatives, Con Kennedy Jun 2024

Hidden Scientists/Hidden Creatives, Con Kennedy

Conference Presentations

This presentation discussed how the UN Sustainable Development Goals (SDGs) were integrated into an existing graphic design module delivered on the BA in Visual Communication Design in a joint project with the TU Dublin School of Art and Design, School of Biological, Health and Sports Sciences
 Sustainability and Research Hub
Research, the Ethics and Integrity Office. The project explored underrepresented women in science and graphic design.


Structural Analysis Of The Female Reptile Reproductive System By Micro-Computed Tomography And Optical Coherence Tomography†, Bonnie K Kircher, Michaela A Mccown, Deirdre M Scully, Richard R Behringer, Irina V Larina Jun 2024

Structural Analysis Of The Female Reptile Reproductive System By Micro-Computed Tomography And Optical Coherence Tomography†, Bonnie K Kircher, Michaela A Mccown, Deirdre M Scully, Richard R Behringer, Irina V Larina

Faculty, Staff and Student Publications

Volumetric data provide unprecedented structural insight to the reproductive tract and add vital anatomical context to the relationships between organs. The morphology of the female reproductive tract in non-avian reptiles varies between species, corresponding to a broad range of reproductive modes and providing valuable insight to comparative investigations of reproductive anatomy. However, reproductive studies in reptilian models, such as the brown anole studied here, have historically relied on histological methods to understand the anatomy. While these methods are highly effective for characterizing the cell types present in each organ, histological methods lose the 3D relationships between images and leave the …


Inhibitory Roles Of Apolipoprotein E Christchurch Astrocytes In Curbing Tau Propagation Using Human Pluripotent Stem Cell-Derived Models, Rei Murakami, Hirotaka Watanabe, Hideko Hashimoto, Mayu Kashiwagi-Hakozaki, Tadafumi Hashimoto, Celeste M. Karch, Takeshi Iwatsubo, Hideyuki Okano, Dominantly Inherited Alzheimer Network (Dian) Jun 2024

Inhibitory Roles Of Apolipoprotein E Christchurch Astrocytes In Curbing Tau Propagation Using Human Pluripotent Stem Cell-Derived Models, Rei Murakami, Hirotaka Watanabe, Hideko Hashimoto, Mayu Kashiwagi-Hakozaki, Tadafumi Hashimoto, Celeste M. Karch, Takeshi Iwatsubo, Hideyuki Okano, Dominantly Inherited Alzheimer Network (Dian)

2020-Current year OA Pubs

Genetic variants in the


Meningioma Transcriptomic Landscape Demonstrates Novel Subtypes With Regional Associated Biology And Patient Outcome, H Nayanga Thirimanne, Damian Almiron-Bonnin, Nicholas Nuechterlein, Sonali Arora, Matt Jensen, Carolina A Parada, Chengxiang Qiu, Frank Szulzewsky, Collin W English, William C Chen, Philipp Sievers, Farshad Nassiri, Justin Z Wang, Tiemo J Klisch, Kenneth D Aldape, Akash J Patel, Patrick J Cimino, Gelareh Zadeh, Felix Sahm, David R Raleigh, Jay Shendure, Manuel Ferreira, Eric C Holland Jun 2024

Meningioma Transcriptomic Landscape Demonstrates Novel Subtypes With Regional Associated Biology And Patient Outcome, H Nayanga Thirimanne, Damian Almiron-Bonnin, Nicholas Nuechterlein, Sonali Arora, Matt Jensen, Carolina A Parada, Chengxiang Qiu, Frank Szulzewsky, Collin W English, William C Chen, Philipp Sievers, Farshad Nassiri, Justin Z Wang, Tiemo J Klisch, Kenneth D Aldape, Akash J Patel, Patrick J Cimino, Gelareh Zadeh, Felix Sahm, David R Raleigh, Jay Shendure, Manuel Ferreira, Eric C Holland

Faculty, Staff and Students Publications

Meningiomas, although mostly benign, can be recurrent and fatal. World Health Organization (WHO) grading of the tumor does not always identify high-risk meningioma, and better characterizations of their aggressive biology are needed. To approach this problem, we combined 13 bulk RNA sequencing (RNA-seq) datasets to create a dimension-reduced reference landscape of 1,298 meningiomas. The clinical and genomic metadata effectively correlated with landscape regions, which led to the identification of meningioma subtypes with specific biological signatures. The time to recurrence also correlated with the map location. Further, we developed an algorithm that maps new patients onto this landscape, where the nearest …


An Essential Gene Signature Of Breast Cancer Metastasis Reveals Targetable Pathways, Yiqun Zhang, Fengju Chen, Marija Balic, Chad J Creighton Jun 2024

An Essential Gene Signature Of Breast Cancer Metastasis Reveals Targetable Pathways, Yiqun Zhang, Fengju Chen, Marija Balic, Chad J Creighton

Faculty, Staff and Students Publications

BACKGROUND: The differential gene expression profile of metastatic versus primary breast tumors represents an avenue for discovering new or underappreciated pathways underscoring processes of metastasis. However, as tumor biopsy samples are a mixture of cancer and non-cancer cells, most differentially expressed genes in metastases would represent confounders involving sample biopsy site rather than cancer cell biology.

METHODS: By paired analysis, we defined a top set of differentially expressed genes in breast cancer metastasis versus primary tumors using an RNA-sequencing dataset of 152 patients from The Breast International Group Aiming to Understand the Molecular Aberrations dataset (BIG-AURORA). To filter the genes …


The Rainbow Wave: Rethinking Lgbtq Representation In Psychedelic-Assisted Therapy Research, Tyler King Jun 2024

The Rainbow Wave: Rethinking Lgbtq Representation In Psychedelic-Assisted Therapy Research, Tyler King

University Honors Theses

This thesis critically evaluates the representation and inclusivity of LGBTQ+ populations in psychedelic-assisted psychotherapy (PAT) research from 2000 onwards, amidst the resurgence of interest in psychedelics for mental health treatment. Through a quantitative analysis of published studies, it investigates the prevalence and depth of gender identity and sexual orientation data collection, revealing a significant gap in demographic data pertinent to these populations. This research aims to highlight the ethical and scientific necessity for more inclusive study designs that incorporate the unique psychological experiences and needs of LGBTQ+ individuals. Recommendations are proposed for enhancing inclusivity in research methodologies, including organizational buy-in, …


Machine Learning In Time-Lapse Imaging To Differentiate Embryos From Young Vs Old Mice†, Liubin Yang, Carolina Leynes, Ashley Pawelka, Isabel Lorenzo, Andrew Chou, Brendan Lee, Jason D Heaney Jun 2024

Machine Learning In Time-Lapse Imaging To Differentiate Embryos From Young Vs Old Mice†, Liubin Yang, Carolina Leynes, Ashley Pawelka, Isabel Lorenzo, Andrew Chou, Brendan Lee, Jason D Heaney

Faculty, Staff and Students Publications

Time-lapse microscopy for embryos is a non-invasive technology used to characterize early embryo development. This study employs time-lapse microscopy and machine learning to elucidate changes in embryonic growth kinetics with maternal aging. We analyzed morphokinetic parameters of embryos from young and aged C57BL6/NJ mice via continuous imaging. Our findings show that aged embryos accelerated through cleavage stages (from 5-cells) to morula compared to younger counterparts, with no significant differences observed in later stages of blastulation. Unsupervised machine learning identified two distinct clusters comprising of embryos from aged or young donors. Moreover, in supervised learning, the extreme gradient boosting algorithm successfully …


Water Quality Assessment, Eutrophication, And Pollution Index In Lake Edku (Nile Delta Of Egypt), Mohamed A. Okbah, Mahmoud S. Ibrahim, Tarek O. Said, Mohammed E.M. Nassar, Maie I. El-Gammal Jun 2024

Water Quality Assessment, Eutrophication, And Pollution Index In Lake Edku (Nile Delta Of Egypt), Mohamed A. Okbah, Mahmoud S. Ibrahim, Tarek O. Said, Mohammed E.M. Nassar, Maie I. El-Gammal

Blue Economy

Lake Edku is one of the most important lakes in the northern Nile Delta of Egypt. Studying the physicochemical characteristics and nutrient salts is essential for assessing water quality. pH recorded values fell within internationally permitted limits; the temperature was suitable for the growth of fish and living organisms. Electrical conductivity indicates a source of fresh water; salinity indicates that the lake water is brackish; Total Dissolved Solids (TDS) refers to most of the fresh water in the lake. Solid particulate matter occurred within the permissible limits according to WHO, and DO, and some results exceeded the permissible limit. However, …