Digital Commons Network^™

Acad10 And Acad11 Enable Mammalian 4-Hydroxy Acid Lipid Catabolism, Edrees H Rashan, Abigail K Bartlett, Jingying Zhang, Andrew J Smith, Zakery N Baker, Patrick Forny, Peng Yuan, David J Pagliarini, Et Al.

2020-Current year OA Pubs

Fatty acid β-oxidation is a central catabolic pathway with broad health implications. However, various fatty acids, including 4-hydroxy acids (4-HAs), are largely incompatible with β-oxidation machinery before being modified. Here we reveal that two atypical acyl-CoA dehydrogenases, ACAD10 and ACAD11, drive 4-HA catabolism in mice. Unlike other ACADs, ACAD10 and ACAD11 feature kinase domains that phosphorylate the 4-hydroxy position as a requisite step in converting 4-hydroxyacyl-CoAs into conventional 2-enoyl-CoAs. Through cryo-electron microscopy and molecular modeling, we identified an atypical dehydrogenase binding pocket capable of accommodating this phosphorylated intermediate. We further show that ACAD10 is mitochondrial and necessary for catabolizing shorter-chain …

Combining Lumipulse P-Tau217 And Aβ42/40 As Confirmatory Tests For Aβ Positivity Prior To Disease-Modifying Therapy, James D. Doecke, Ahmed Chenna, Mintzu Lo, Youssouf Badal, Brandon Yee, Robert Martone, Christos Petropoulos, Christopher J. Fowler, Simon Laws, Stephanie R. Rainey-Smith, Ralph N. Martins, Christopher C. Rowe, Colin L. Masters, John Winslow

Research outputs 2022 to 2026

Introduction: For a blood-based biomarker to be considered a confirmatory test for the detection of abnormal amyloid beta (Aβ) levels, the sensitivity and specificity must be equivalent to that of current cerebrospinal fluid tests. Methods: In the current study we assessed the ability of phosphorylated tau (p-tau)217 and Aβ42/40 from the Lumipulse G p-tau217 and β-amyloid ratio (1-42/1-40) tests, individually and combined, to predict Aβ positron emission tomography status in two sub-cohorts from the Australian Imaging, Biomarkers, and Lifestyle Study of Ageing. Results: Testing an Alzheimer's disease continuum cohort, the area under the curve (AUC), sensitivity, specificity, and accuracy for …

Associations Of Biomarkers Of Systemic Inflammation, Angiogenesis, And Cell-To-Cell Adhesion With Tumor Budding Among Early-Onset And Later-Onset Colorectal Cancer Patients, Oda Hausmann, Adetunji T Toriola, Et Al.

2020-Current year OA Pubs

BACKGROUND: High tumor budding and elevated systemic inflammation are adverse prognostic indicators in colorectal cancer. Its underlying mechanisms remain poorly understood. It is unclear whether systemic inflammation, angiogenesis, and cell-to-cell adhesion influence tumor budding.

METHODS: We investigated n = 132 stage I-III colorectal cancer patients recruited at Huntsman Cancer Institute enrolled in the ColoCare Study. Tumor budding was evaluated using an evidence-based scoring system, and patient sera were analyzed for nine circulating biomarkers using the Meso Scale Discovery platform. We examined associations between biomarkers and tumor budding using multivariable linear regression models adjusted for age, sex, neoadjuvant treatment, stage, and …

Minimally Invasive, Bioadaptive Multimodal Sensor Probe With Safe Deployment For Real-Time Acute Compartment Syndrome Diagnosis, Seung Gi Seo, Amanda M Westman, William Moritz, Joseph Ribaudo, Mitchell A Pet, Et Al.

2020-Current year OA Pubs

Acute Compartment Syndrome (ACS) is a serious medical condition that arises from increased pressure within osteofascial compartments, leading to impaired blood flow and potential tissue damage. Early and accurate diagnosis is critical for preventing permanent damage. Current methods rely largely on qualitative assessments with limited accuracy, and those that exploit invasive pressure measurements often prove inadequate. Herein, a soft materials-based multimodal sensor probe is introduced, as well as the mechanical and thermal influences to monitor intra-compartmental pressure, tissue oxygen saturation (StO

Aberrant Expression Of Nuclear Prothymosin Α Contributes To Epithelial-Mesenchymal Transition In Lung Cancer, Liyun Chen, Chung-Teng Wang, Jia-Ming Chang, Ai-Li Shiau, Gia-Shing Shieh, Yau-Lin Tseng, Yi-Ting Yen, Tang-Hsiu Huang, Li-Hsin Cheng, Yu-Chih Wu, Chao-Liang Wu, Bing-Hua Su, Pensee Wu

2020-Current year OA Pubs

Elevated expression of prothymosin α (ProT) is frequently observed in cancers, but the underlying molecular mechanism remains poorly understood. Here, we report the clinical relevance of ProT expression and its correlation with lung cancer progression. We have shown that ProT was highly expressed in early-stage lung cancer, exhibiting nuclear localization; on the contrary, a loss of nuclear ProT expression was detected in late-stage tumor specimens. Furthermore, the expression of nuclear ProT impaired lung cancer cell migration, suppressed TGF-β-induced epithelial-to-mesenchymal transition (EMT)-associated transcription factor expression, and inhibited in vivo tumor metastasis. The suppressive effect of ProT was further found to trigger …

Moderate Coffee And Tea Consumption Is Associated With Slower Cognitive Decline, Stephanie R. Rainey-Smith, Kelsey R. Sewell, Belinda M. Brown, Hamid R. Sohrabi, Ralph N. Martins, Samantha L. Gardener

Research outputs 2022 to 2026

Background: Globally, coffee and tea are consumed extensively, potentially providing neuroprotection through anti-inflammatory and antioxidative stress effects. Objective: This study aimed to investigate associations between coffee and tea intake and cognitive function. Methods: In a longitudinal prospective cohort study, dementia-free (n = 8715; age range 60.0–85.2 years) older adults from the UK Biobank self-reported coffee and tea intake over the previous year; ‘never’, ‘moderate’ (1–3 cups/day), or ‘high’ (≥4 cups/day). Participants completed cognitive assessments at ≥2 timepoints (mean of 9.11 years). Results: Those ‘never’ consuming coffee and ‘moderate’ coffee consumers (β = 0.06, p = 0.005; β = 0.07, p <  0.001, respectively), as well as ‘moderate’ tea consumers and ‘high’ tea consumers (β = 0.06, p = 0.009; β = 0.06, p = 0.003, respectively) had slower fluid intelligence decline. Additionally, those ‘never’ consuming coffee and ‘moderate’ coffee consumers had a slower increase in pairs matching errors (β = −0.05, p = 0.022; β = 0.05, p = 0.013) compared to ‘high’ consumers. Conclusions: ‘Moderate’ coffee, and ‘moderate’ and ‘high’ tea intake may be a protective factor against cognitive decline. Randomized controlled trials are required to establish causal relationships leading to evidence-based recommendations regarding benefits of coffee and tea intake.

Muscle Creatine Levels And Sprint Performance In Young Adult Vegans And Vegetarians After 7 Days Of Creatine Monohydrate Supplementation, Thomas Christian Bonne, Valentina Arthemalle, Colin Stephen Doherty, Andreas Breenfeldt Andersen, Jacob Bejder, Thomas Ehlers, Henrik Holm-Sørensen, Nikolai Baastrup Nordsborg

Research outputs 2022 to 2026

Athletes use creatine monohydrate (CM) to enhance high-intensity exercise performance by increasing creatine phosphate availability. While CM supplementation is known to raise muscle creatine levels in vegans and vegetarians, its impact on exercise performance remains uncertain. We examined the effects of CM supplementation on muscle creatine content and exercise performance in vegans and vegetarians. In a randomized, double-blind placebo-controlled design, 15 healthy vegans and vegetarians consumed CM (0.3 g/kg/day, n = 7) or placebo (PLA, 0.3 g maltodextrin/kg/day, n = 8) four times a day for 7 days. Before and after supplementation, repeated sprint capacity was determined. Body mass and …

Restricted Social Engagement Is Associated With Depressive Symptoms In Older Chinese Adults: A Nationwide Cross-Sectional Study, Zheng Guo, Yulu Zheng, Yahong Zhu, Huacheng Wang, Jian Geng, Hengrui Liu, Piyong Ma, Lois Balmer, Xingang Li

Research outputs 2022 to 2026

Background and Aims: Social isolation has been linked to depressive symptoms in older adults. Previous studies have shown that greater engagement in social activities is associated with better mental health. However, it remains unclear whether restricted social engagement is related to poorer mental health outcomes. This study examined the association between reduced social activities/networking and the presence of depressive symptoms among community-dwelling older Chinese adults. Methods: During the COVID-19 pandemic, people chose to minimize going out to reduce the risk of infection, creating a natural setting that mimicked a passive intervention of restricted social engagement for community-based individuals. Data were …

Curing The Peasant's Disease : Frank Oldt’S Work And Research On Hookworm Disease In South China, 1905-1926, Jiaying Fu

Lingnan Theses (MPhil & PhD)

While current scholarship on “hygienic modernity” in China focuses on the construction of urban health systems and institutional infrastructures, this study proposes an alternative analytical lens by foregrounding the domain of agricultural health. It aims to investigate how early twentieth-century medical researchers uncovered public health models grounded in China’s agrarian conditions. Taking the case of Frank Oldt (1879–1976), a medical missionary living in Guangdong between 1905 and 1926, this research examines how he identified, interpreted, and sought to mitigate the problem of hookworm disease—a parasitic condition intricately linked to China’s farming practices and rural environmental conditions.

Specifically, this thesis aims …

Antimicrobial Resistance Of Clostridioides (Clostridium) Difficile In Cambodia, Lengsea Eng, Papanin Putsathit, Su Chen Lim, Jessica M. Chisholm, Deirdre A. Collins, Archie C.A. Clements, Kefyalew Addis Alene, Thomas V. Riley

Research outputs 2022 to 2026

Background/Objectives: Antimicrobial resistance (AMR) remains a major topic of interest in infectious disease management. We studied AMR in Clostridioides difficile isolated in Cambodia. Methods: Agar dilution susceptibility testing was performed according to the CLSI guidelines to determine minimal inhibitory concentrations (MICs) of 10 antimicrobials for 192 isolates of C. difficile from four populations in Cambodia: hospitalised adults, hospitalised children, children from an outpatient department (OPD), and healthy adolescents in the community. Results: Using the CLSI MIC breakpoints for anaerobes and EUCAST breakpoints for C. difficile, all isolates were susceptible to vancomycin, metronidazole, fidaxomicin, and amoxicillin/clavulanic acid, and none were resistant …

Lower Limb Muscle Strength Matters: Effect Of Relative Isometric Strength On Countermovement And Rebound Jump Performance In Elite Youth Female Soccer Players, Jack Fahey, Paul Comfort, Nicholas Joel Ripley

Research outputs 2022 to 2026

Background: Expression of maximal and rapid force in the hip, knee, and plantar flexors is important for athletic performance in female soccer. This study was designed to determine the effect of relative isometric strength in the isometric mid-thigh pull (IMTP) on countermovement jump (CMJ) and rebound jump (CMJ-R) performance in female youth soccer players. Methods: Ninety-six female soccer players (age: 14.1 ± 2.3 years, height: 160.5 ± 9.7 cm, mass: 55.0 ± 10.3 kg) completed three trials of the IMTP, CMJ, and CMJ-R using force plates. Players were categorized as stronger (top quartile, n = 19) and weaker players (bottom …

A Large-Scale Multi-Centre Study Characterising Atrophy Heterogeneity In Alzheimer's Disease, Vikram Venkatraghavan, Damiano Archetti, Pierrick Bourgeat, Chenyang Jiang, Mara Ten Kate, Anna C. Van Loenhoud, Rik Ossenkoppele, Charlotte E. Teunissen, Elsmarieke Van De Giessen, Yolande A.L. Pijnenburg, Giovanni B. Frisoni, Béla Weiss, Zoltán Vidnyánszky, Tibor Auer, Stanley Durrleman, Alberto Redolfi, Simon M. Laws, Paul Maruff, Neil P. Oxtoby, Andre Altmann, Daniel C. Alexander, Wiesje M. Van Der Flier, Frederik Barkhof, Betty M. Tijms

Research outputs 2022 to 2026

Previous studies identified atrophy-based Alzheimer's disease(AD) subtypes linked to distinct clinical symptoms, but their consistency across subtyping approaches remains unclear. This large-scale study evaluates subtype concordance using two data-driven approaches. In this work, we analyzed data from n=10,011 patients across 10 AD cohorts spanning Europe, the US, and Australia, extracting regional volumes using Freesurfer. To characterize atrophy heterogeneity in the AD continuum, we developed a two-step approach, Snowphlake (Staging NeurOdegeneration With PHenotype informed progression timeLine of biomarKErs), to identify subtypes and atrophy-event sequences within each subtype. Results were compared with SuStaIn (Subtype and Stage Inference), which jointly estimates subtypes and …

Automated Instance Segmentation And Registration Of Spinal Vertebrae From Ct-Scans With An Improved 3d U-Net Neural Network And Corner Point Registration, James Hill, Muhammad Rizwan Khokher, Chuong Nguyen, Matt Adcock, Ron Li, Stuart Anderson, Thomas Morrell, Tim Diprose, Olivier Salvado, Dadong Wang, Guan K. Tay

Research outputs 2022 to 2026

This paper presents a rapid and robust approach for 3D volumetric segmentation, labelling, and registration of human spinal vertebrae from CT scans using an optimised and improved 3D U-Net neural network architecture. The network is designed by incorporating residual and dense interconnections, followed by an extensive evaluation of different network setups by optimising the network components like activation functions, optimisers, and pooling operations. In addition, the network architecture is optimised for varying numbers of convolution layers per block and U-Net levels with fixed and cascading numbers of filters. For 3D virtual reality visualisation, the segmentation output of the improved 3D …

History Informing The Future Of Exercise Oncology, Daniel A. Galvão, Kerry S. Courneya, Alejandro Lucia, Anne M. May, Karen Mustian, Allison B. Warner, Wiskemann Joachim, Karen Wonders, Kathryn H. Schmitz, Robert U. Newton

Research outputs 2022 to 2026

Exercise is increasingly recognized by patients, clinicians, and allied health professionals globally as an important component of cancer care. In this paper, we provide a viewpoint on developments in exercise oncology over the past 4 decades leading up to the creation of the International Society of Exercise Oncology (ISEO). We briefly review research in adult and pediatric cancers from early foundation studies to larger randomized controlled trials published in mainstream oncology journals alongside critical work undertaken in exercise and cancer biological mechanisms. We also discuss potential strengths, weaknesses, opportunities, and threats facing ISEO in becoming a global forum for exercise …

Potential Biological Hazards In Health Clinics: Key Strategies For Enhancing Worker Safety In Malaysia, Subki Ahmad, Normah Awang, Ermie Abdull Hamid, Anuar Ithnin, Nurul Farahana Kamaludin, Noraizah Muhd Nor

Makara Journal of Health Research

Background: Biological hazards in health clinics may lead to acute or chronic health issues for healthcare workers. This study aims to identify potential biological hazards within health clinics, with a focus on the knowledge, attitude, and practice (KAP) of healthcare workers, in order to improve their safety.

Methods: Samples from environmental surfaces were collected and cultured to identify bacterial pathogens. A cross-sectional study involving 203 healthcare workers was conducted using a questionnaire derived from CDC-adapted guidelines. Descriptive analysis and multivariate regression were used to assess KAP.

Results: Bacterial growth was observed in all clinics. The Kruskal-Wallis Test …

The Effect Of Maternal Diet On Neonatal Jaundice: A Case-Control Study, Marzieh Mahdipoor, Alireza J. Motlagh, Hamid S. Baghbanan, Mahmood Bakhtiyari, Zohreh Khodaii, Sara E. Saeieh

Sultan Qaboos University Medical Journal

Objectives: This study aims to investigate the influence of dietary heat intensity in maternal diets on the incidence of neonatal jaundice. Specifically, we examine whether maternal consumption of "dietary heat intensity" foods affects neonatal bilirubin levels, while controlling for potential demographic and obstetric confounding factors. Methods: This retrospective case-control study was conducted between October 2023 and September 2024. The study population consisted of mothers and their newborns attending healthcare centers in Alborz Province, Iran. Based on predefined inclusion and exclusion criteria, 152 newborns were enrolled, comprising 75 non-jaundiced and 77 jaundiced infants. Data were collected using an information-gathering form and …

Utilizing Simulation Training To Understand Maternal Cardiac Arrest Precipitated By Amniotic Fluid Embolism: A Quality Improvement Project, Erica L. Wright, Megan L. Tiernan, Michael W. Neft, Paige Spagiare, Erica Coffin

Doctor of Nurse Anesthesia Practice (DNAP) Manuscripts

Background and Problem: Maternal cardiac arrest precipitated by amniotic fluid embolism is among the leading direct causes of death among laboring women (Enomoto et al., 2022). Because it presents suddenly without any immediate apparent cause and lacks specific diagnostic tests, frontline obstetric caregivers must be vigilant, competent, and prepared to handle this potentially catastrophic emergency. Coordination among multiple disciplines is paramount since two lives, not just one, are at risk. Unfortunately, the rarity of maternal cardiac arrest significantly limits opportunities for staff to learn how to identify and manage these events successfully. Method: This quality improvement project established a simulation-based …

Identifying Novel Fibrotic Mechanisms Underlying Treatment-Resistant Lower Urinary Tract Dysfunction, Quentin Darcy

Graduate Doctoral Dissertations

ABSTRACT

IDENTIFYING NOVEL FIBROTIC MECHANISMS UNDERLYING TREATMENT-RESISTANT LOWER URINARY TRACT DYSFUNCTION

August 2025

Quentin D’Arcy, B.S., University of Massachusetts Amherst

Ph.D., University of Massachusetts Boston

Directed by Dr. Jill Macoska

Lower urinary tract dysfunction (LUTD) is a common, age-related disease that affects millions of men over the age of 50. Current treatment for this and other related prostate diseases concentrate on decreasing benign prostate growth and relaxing smooth muscle contractions to alleviate urinary voiding symptoms. However, up to 45% of patients with LUTD are treatment-resistant and require surgical intervention to resolve prostate issues. By focusing on the contribution of inflammation-derived …

Atypical Dengue Fever Presentation With Severe Leukopenia: A Case Report From An Endemic Border Region, Elias Arellano Villanueva, Alhasan Asaad, Jose E. Campo Maldonado

School of Medicine Publications

Dengue virus infection is increasingly recognized in South Texas, particularly in areas bordering Mexico. Although many cases are mild and self-limiting, dengue can present with atypical features, including hematological abnormalities and bleeding, even in the absence of plasma leakage. A 22-year-old Hispanic woman presented to a hospital in South Texas with hematemesis, fever, and gastrointestinal symptoms following travel to northeastern Mexico (Monterrey, Nuevo Leon). Initial laboratory workup revealed severe leukopenia and neutropenia, mild thrombocytopenia, and elevated liver enzymes, but no evidence of plasma leakage. A bone marrow biopsy was performed due to persistent cytopenias, revealing a reactive process consistent with …

The Association Between Irregular Sleep Patterns And Learning Outcomes: Implications For Students’ Health In Iraq, Hazhmat Ali, Dildar Haji Musa, Ary Habeeb Mohammed, Hiwa Abdulraheem, Sherzad Salahadeen, Alind Mustafa

Makara Journal of Health Research

Background: Students often exhibit irregular sleep patterns due to rigorous academic workloads, which exert a considerable negative impact on their mental health. The present study aims to investigate the influence of irregular sleep on academic performance.

Methods: This study recruited a cohort of 409 medical students of both genders. Upon their consent, participants filled out a closed-ended questionnaire on various sleep parameters, including sleep habits, duration, and environment.

Results: Students with irregular sleep patterns reported higher rates of sleep deprivation, late sleep onset, and troubled sleep. Moreover, they spent a longer duration using smart devices before bedtime …

Cooling Protocols Impact On Nickel-Titanium Rotary Instruments Cyclic Fatigue Resistance Under Extreme Curvatures And Sodium Hypochlorite, Palak Ravjibhai Ranparia, Chintan Joshi, Mona Somani, Aashray Patel, Urooj Desai, Janki Prajapati

Journal of Dentistry Indonesia

Objective: In this work, Hyflex CM, TruNatomy, and Plex V heat-treated nickel titanium rotary instruments were evaluated at body temperature (36 °C ± 1 °C) with and without a cooling protocol to assess the cyclic fatigue resistance. Methods: A 90° curved stainless-steel block was used for cyclic fatigue tests on 60 randomly selected rotary instruments, divided into two groups of 30: body temperature (n = 10) and body temperature with cooling (n = 10). Instruments were further subdivided into 6 groups of 3 different instruments. Cooling protocol group instruments received 5-second spray cooling every 30 seconds, along with continuous 5% …

Development And Comparative Evaluation Of A Novel Aloe Vera–Vinegar Gel As A Sustainable Histological Slide Coating Agent, Jayagopi Deepasakthi, Palati Sinduja

Journal of Dentistry Indonesia

Objective: Reliable tissue adhesion to glass slides is critical for accurate histological evaluation. Egg albumen, a commonly used coating agent, often results in background staining and inconsistent performance. Aloe vera, known for its biocompatibility and adhesive properties, presents a sustainable alternative. This study aimed to develop a novel aloe vera–vinegar gel formulation and compare its slide-coating performance with that of traditional egg albumen. Methods: Fresh Aloe vera gel was extracted and combined with nonfruit vinegar, filtered, and refrigerated. Thirty paraffin-embedded tissue sections were divided into two groups: one coated with aloe vera–vinegar gel and the other coated …

Self-Medication Behavior Of Dental Students With Oral Ulceration Lesions: A Cross-Sectional Study In Yogyakarta, Indonesia, Fita Fathaya Iriana, Hendri Susanto, Rosa Amalia

Journal of Dentistry Indonesia

Objective: Self-medication refers to medication behavior for self-diagnosed symptoms. Oral ulcers are self-medicated lesions in the oral cavity. Dental students have different knowledge about oral cavity lesions and may self-medicate using drugs. This study aimed to determine the self-medication behavior of dental students for oral ulcers. Methods: This cross-sectional study was conducted on dental students in the Faculty of Dentistry from different batch years. Purposive sampling was used to select students with oral ulcer lesions in the last six months. A validated and reliable questionnaire was used to assess self-medication behavior. Data collection using the online form. Student behavior …

Perception Of Conventional Cigarettes And Vaping Among Smokers And Nonsmokers: A Cross-Sectional Study, Indrayadi Gunardi, Rahmi Amtha, Firstine Kelsi Hartanto, Niko Falatehan, Alyah Heriandi, Angelita Victoria Kurniawan, Najla Nadiah, Wiwiek Poedjiastoeti, Andrijanto Andrijanto, Elizabeth Fitriana Sari

Journal of Dentistry Indonesia

Objectives: The growing popularity of vaping has introduced additional challenges, as potential health risks are still under investigation. Exploring differences in smoking perceptions between smokers and non-smokers could provide valuable insights into smoking behavior and inform effective intervention strategies. This study aimed to evaluate and compare the perceptions of smoking, specifically vaping and conventional cigarette use, among young adult smokers and non-smokers. Methods: An analytical cross-sectional design was employed, with 542 university students included through random sampling, using a questionnaire consisting of 8 items. Data were analyzed using the Kruskal-Wallis test and Rasch model analysis. Results: Of the subjects, 259 …

Neutral Zone Vs. Conventional Denture Fabrication: A Randomized Crossover Study On Denture Performance, Karthik Kannaiyan, Arunima Chauhan, Vijayendranath Nayak, Riyshmaa Devendaran, Dashmita Peterson, Pavittra Kanesan, Vityaa Lakshmi

Journal of Dentistry Indonesia

Objectives: It is challenging to achieve satisfactory outcomes in a complete denture for patients with resorbed residual ridges. Utilization of neutral zone techniques to guide posterior denture tooth arrangement and denture base contouring has been considered for many decades. However, the evidence is still not enough to revise protocols. This study aimed to compare patient satisfaction and stability of neutral zone denture with conventional denture. Methods: A crossover clinical trial was conducted among patients with resorbed mandibular ridges. Each participant received two sets of dentures: one fabricated using the neutral zone technique and one using the conventional method, in a …

Papillon–Lefèvre Syndrome: A Report Of Four Cases In One Family, Muhammed Abdullah Çege, Dilek Aynur Çankal, Ebru Binici, Bilge Turhan Bal

Journal of Dentistry Indonesia

Papillon–Lefèvre syndrome (PLS) is a rare genetic disorder caused by mutations in the cathepsin C gene and inherited in an autosomal recessive pattern. The risk of its occurrence is heightened by consanguineous marriages. PLS affects both genders and presents with hyperkeratotic patches on the hands and feet and precocious aggressive periodontitis. Although teeth initially erupt normally, rapid resorption in periodontal tissues leads to swift tooth loss, and prosthetic rehabilitation is complicated due to aggressive alveolar bone resorption. Case report: In 2021, a brother and sister sought dental treatment at Gazi University’s Faculty of Dentistry. After thorough examinations, the brother underwent …

Comparison Of Pharyngeal Airway And Dentoskeletal Effects Of 2 And 4 Premolar Extraction Treatment In Adult Orthodontic Patients, Esra Genc, Ahmet Karaman

Journal of Dentistry Indonesia

Objective: This study aimed to compare pharyngeal airway and dentoskeletal effects of 2 and 4 premolar extraction treatments in adult patients separately for each gender. Methods: The study was conducted with 60 adults (26 males; 34 females) aged 18-35 years. Individuals were divided into 3 groups as non-extraction, 2-premolar extraction, and 4-premolar extraction. Pre-treatment (T0) and post-treatment (T1) dentoskeletal and pharyngeal airway measurements were performed on cephalometric radiographs. Results: A significant increase in nasopharyngeal airway (PNS-ad2) and anterior hyoid bone movement (CV3ai-H) was observed in the 4-extraction group; whereas in the 2-extraction group, inferior oropharyngeal airway (IAS) narrowing and hyoid …

Biomarkers For The Diagnosis Of Indeterminate Pulmonary Nodules: Are We There Yet?, Kevin C Mcgann, Timothy A Khalil, Michael N Kammer, Edwin J Ostrin, Harvey I Pass, Jun-Chieh James Tsay, Leopoldo N Segal, Melissa Potter, Stephen A Deppen, Fabien Maldonado, Eric L Grogan

Faculty, Staff and Student Publications

Indeterminate pulmonary nodules (IPNs), which are nodules that cannot be classified as definitively benign or malignant at the time of detection, are now diagnosed on the order of millions per year. Management of IPNs remains heavily debated, and routine practice ultimately involves some balance of overall clinical risk assessment and additional diagnostic tests or procedures which may generate significant risk, cost, and worry. Biomarkers are biologically based tests or indicators capable of accurately characterizing the physiologic properties of homeostasis and disease that are not otherwise easily evaluated by the clinician. Accurate biomarkers thereby serve as reliable surrogates for biological aberrancy, …

Expression Graph Network Framework For Biomarker Discovery, Yang Liu, Jason Huse, Kasthuri Kannan

Faculty, Staff and Student Publications

Biomarker discovery for complex diseases, such as cancer, hinges on uncovering molecular signatures that capture intricate, interconnected relationships within biological data-a challenge that traditional statistical and machine learning methods often fail to meet due to the complexity of high-dimensional gene expression profiles. To overcome this, we introduce the expression graph network framework (EGNF). This cutting-edge graph-based approach integrates graph neural networks with network-based feature engineering to enhance the predictive identification of biomarkers. EGNF constructs biologically informed networks by combining gene expression data and clinical attributes within a graph database, utilizing hierarchical clustering to generate dynamic, patient-specific representations of molecular interactions. …

Auprc: A Metric For Evaluating The Performance Of In-Silico Perturbation Methods In Identifying Differentially Expressed Genes, Hongxu Zhu, Amir Asiaee, Leila Azinfar, Jun Li, Han Liang, Ehsan Irajizad, Kim-Anh Do, James P Long

Faculty, Staff and Student Publications

In silico perturbation models, computational methods that can predict cellular responses to perturbations, present an opportunity to reduce the need for costly and time-intensive in vitro experiments. Many recently proposed models predict high-dimensional cellular responses, such as gene or protein expression to perturbations such as gene knockout or drugs. However, evaluating in silico performance has largely relied on metrics such as $R^{2}$, which assess overall prediction accuracy but fail to capture biologically significant outcomes like the identification of differentially expressed (DE) genes. In this study, we present a novel evaluation framework that introduces the AUPRC metric to assess the precision …