Biomedical Engineering and Bioengineering Commons^™

A Neuroimmune Circuit Mediates Chemo Brain Pathology, Daniel Ahmadi

McKelvey School of Engineering Graduate Student Theses & Dissertations

Chemotherapeutic agents, while effective in targeting malignant tumors, often reduce the patients’ quality of life by inducing fatigue, pain, and motivational deficits. These symptoms are collectively referred to as “chemo brain.” The mechanisms underlying these adverse effects, and specifically whether fatigue and motivational impairments share a common etiology, remain poorly understood. The neural–immune substrates of these symptoms remain obscure, in part because standard preclinical regimens either bypass key systemic signals or introduce local toxicity confounds. Here, I establish and validate a three‑day, low‑dose intravenous cisplatin protocol that avoids peritoneal inflammation and severe renal injury yet produces robust, reversible fatigue and …

Enhanced And Interpretable Prediction Of Multiple Cancer Types Using A Stacking Ensemble Approach With Shap Analysis, Shahid Mohammad Ganie, Pijush Kanti Dutta Pramanik, Zhongming Zhao

Faculty, Staff and Student Publications

Background: Cancer is a leading cause of death worldwide, and its early detection is crucial for improving patient outcomes. This study aimed to develop and evaluate ensemble learning models, specifically stacking, for the accurate prediction of lung, breast, and cervical cancers using lifestyle and clinical data.

Methods: 12 base learners were trained on datasets for lung, breast, and cervical cancer. Stacking ensemble models were then developed using these base learners. The models were evaluated for accuracy, precision, recall, F1-score, AUC-ROC, MCC, and kappa. An explainable AI technique, SHAP, was used to interpret model predictions.

Results: The stacking …

Analysis Of Differentially Expressed Genes (Deg) And Upstream Regulator Proteins Indicates That Inhibition Of Transforming Growth Factor Beta 1 (Tgfb1) Is A Potential Target For Acne Inversa, Weri Veranita, Siva Fauziah, Siti Nurbaya

Indonesian Journal of Medical Chemistry and Bioinformatics

Acne inversa (AI) is a chronic inflammatory skin disease characterized by painful nodules, abscesses, and scarring, primarily in intertriginous areas. This study aims to identify potential therapeutic targets for managing acne inversa based on the analysis of differentially expressed genes (DEG). The expression targets of these genes were then validated for their potential as biomarkers, and upstream regulator proteins (URPs) were identified from the resulting DEG. DEG analysis on the GEO dataset GSE122592 (acne inversa vs. healthy donor skin) revealed five DEG that can serve as biomarkers for acne inversa, with a sensitivity and specificity of (100%). These DEG—IL10, GZMB, …

Determining The Wound Closure Capabilities Of A Biological Engineered Blood Vessel For Hd Access, Brianna Regan, Alex Dumitru, Mai Lam

Medical Student Research Symposium

End stage renal disease (ESRD) is a prominent chronic condition with dialysis as a primary treatment option. Dialysis necessitates implementation of an access point, with the gold standard being an AV fistula which possesses multiple shortcomings. Alternative access points, namely synthetic grafts, do not allow wound healing characteristics. This work aims to explore how a tissue engineered vascular graft (TEVG) may be able to address these issues by allowing a long-term access point for HD that can close puncture wounds.

The effects of growth factors on our cells were tested preliminarily by means of a scratch assay on plates of …

Limbgod(Pat. Pending): Wearable Garment For Amputation Prevention, Naomi Choi Dpm, Mba, Phuc An Dinh Bs, Ms, Eric Lee Bs, Francois M. Lokenye Dpm

Posters

Approximately 1.6 million people in the U.S. have lower limb amputations, which is expected to double by 2050 (Wong et al.). Socio-economic factors: income, education, rural residency & race, impact amputation risk (Okesina et al.), with Black Americans 70% are more likely to undergo major lower limb amputations than white Americans, even after adjusting for care access & comorbidities (Feinglass et al., Holman et al., Regenbogen et al.). Within 5 years, up to 50% of first-time amputees require another amputation (Dilingham et al., Glaser et al.) & those with comorbidities face a 77% five-year mortality rate (Fortington et al.).

Development Of Highly Sensitive & Selective Sensor, Megha Shinde

Biomedical Engineering Theses & Dissertations

This work presents the development of innovative electrochemical sensors for selective and sensitive dopamine (DA) detection using flexible laser-induced graphene (LIG) electrodes modified with advanced nanocomposites. An LIG electrode synthesized from pyralux film was functionalized with Nb₄C₃Tx MXene and silver nanoparticles (AgNPs), significantly enhancing its electrochemical performance. The modified electrode exhibited a peak anodic current increase from 150 μA to 330.4 μA and demonstrated a wide linear detection range (100 nM to 10 μM) with a low detection limit of 1 nM and high sensitivity (160.96 μA/nM cm ^-2). It also displayed excellent selectivity against …

Nanosecond Pulsed Electric Field And Plasma Jets For Cancer Therapy, Edwin Ayobami Oshin

Biomedical Engineering Theses & Dissertations

Nanosecond pulsed electric field (nsPEF) employs nanosecond-duration, high voltage pulses to induce oxidative stress, leading to temporary or permanent damage to cells or tissue (also known as reversible and irreversible electroporation), and has been considered a promising approach for cancer therapy. In parallel to this, nanosecond pulsed atmospheric pressure plasma jets (ns-APPJs) have also shown to be effective in inactivating cancer cells or increasing sensitivity of cells to electric fields. ns-APPJs are known to generate reactive chemical agents, including reactive oxygen and nitrogen species (RONS) which induces oxidative stress resulting in cell proliferation, apoptosis, and necrosis. In this dissertation, a …

Development And Analysis Of The Kinematic-Dynamic Model Of The Rehabilitation Exoskeleton System, Umidjon Abdumutalipovich Takabaev, Zafar Botirovich Juraev

Technical science and innovation

Designing modern rehabilitation exoskeleton systems requires a comprehensive study of human-machine interactions. In this process, creating kinematic and dynamic mathematical models of the system is extremely important. In this paper, we develop mathematical models that describe rehabilitation exoskeleton systems' kinematic and dynamic properties. Based on the Denavit-Hartenberg method we construct kinematic model of the exoskeleton system. The method gave us to determine the coordinate system for each joint. Furthermore, we also study the motion range of joints of the exoskeleton. Modeling the dynamic properties of the system performed with the second-order Lagrange equation. The exoskeleton construction consisting of knee, thigh, …

Multimodal Ai-Driven Biomarker For Early Detection Of Cancer Cachexia, Sabeen Ahmed

USF Tampa Graduate Theses and Dissertations

Cancer cachexia is a metabolic syndrome characterized by substantial skeletal muscle loss, impacting cancer patients' survival and quality of life. Despite its clinical significance, early detection remains a challenge due to the lack of standardized diagnostic criteria and the reliance on indirect markers. This work presents an AI-driven approach to enhance cachexia detection and monitoring by integrating multiple deep learning methodologies. We explore transformer architectures for time-series analysis to model sequential medical data, enabling disease prediction and progression modeling. To ensure robust and reliable decision-making in clinical settings, we explore Bayesian deep neural networks for uncertainty estimation. Additionally, we introduce …

Tannic Acid-Stabilized Liposomal Platform For Microrna Delivery In Endometriosis, Victoria Herrera, Rahul Tiwari, Bridgette Lozano Lozano, Subhash Chauhan, Murali Yallapu

Research Symposium

Background: Endometriosis is defined as the presence of endometrial-type mucosa outside the uterine cavity. It affects about 6.5 million women of reproductive age in the United States. It is a leading cause of infertility, impacting up to 50% of women with difficulty conceiving, and is prevalent in as many as 90% of individuals experiencing severe, chronic pelvic pain. Women with endometriosis had 4.2-fold higher ovarian cancer risk than those without endometriosis. Within this work, a range of liposomal formulations was investigated for endometriosis. Recent studies confirmed the role of miR-205-5p as a potential suppressor of ectopic endometriotic progression. Clinical translation …

Fabrication Of Docetaxel Loaded Pcl/Plga Electrospun Nanofibers For Lung Cancer Therapy, Rahul Tiwari, Fnu Pranav, Eswara N. Hanuma Kumar Ghali, Subhash Chauhan, Murali Yallapu, Luis Chavez

Research Symposium

Background: Electrospinning is a commonly employed method in tissue engineering due to its ability to produce nano-/microscale fibrous materials with mechanical and functional properties that mimic the extracellular matrix of living tissues. The general interest in electrospun fibrous matrices has recently expanded to cancer research both as scaffolds for in vitro cancer modeling and as patches for in vivo therapeutic delivery. This research aims to investigate the efficient delivery of anticancer drug in lung cancer treatment.

Methods: Three different biocompatible polymeric nanofibers (i.e. PCL fibers, PCL-PLGA mixed fibers, and PCL-PLGA tetra-layered fibers) loaded with docetaxel, were prepared using electrospinning technique. …

Effect Of Walking Speed And Asymmetric Loading On Human Gait, Dumitru I. Caruntu, Alfirio Trejo, Eric Rodriguez, Camila T. Alvarez Barriga

Research Symposium

Background: Human gait is influenced by factors such as walking speed and carrying heavy objects asymmetrically. Understanding these effects enhances rehabilitation research for individuals recovering from leg injuries. Clinical angles of the knee, derived from experimental data, provide insights into movement patterns, revealing abnormalities or compensations. Calculating these angles requires a joint coordinate system (JCS) for the knee joint.

Methods: This study employed the VICON motion analysis system with ten infrared cameras arranged circularly for comprehensive gait analysis. Reflective markers placed on anatomical landmarks facilitated motion capture, recorded at 100 Hz. Data processing included filtering, establishing a JCS, …

Muscle Force Analysis In Patients With Forefoot Amputees And Healthy Subjects During Walking, Anthony Melgar, Dumitru Caruntu, Javier La Fontaine, Luis Venegas, Hafizur Rahman

Research Symposium

Forefoot amputation, a type of partial foot amputation, involves the surgical disarticulation of either the interphalangeal or metatarsophalangeal joints. This procedure not only removes critical joint structures but also alters the positioning of associated muscles. Forefoot amputations significantly affect gait patterns and redistribute plantar pressure maps across the plantar surface of the foot. The phalanges are crucial in absorbing and redistributing plantar pressure during the gait cycle. The absence of phalanges and the loss of metatarsophalangeal joints alter the normal pressure distribution maps, possibly shifting peak pressure from one local foot region to another region of the foot. This research …

Unified Adaptive Cross-Attention Multimodal Network, Mahesh Sunuwar

Shelby Hall Graduate Research Forum Posters

Accurately diagnosing appendicitis remains a significant challenge in emergency medicine due to its varied clinical presentation and overlap with other abdominal conditions. Existing diagnostic models often rely on unimodal data, such as computed tomography (CT) images or clinical notes, limiting their ability to capture the full complexity of patient information. This study proposes a novel multimodal framework, a Unified Adaptive Cross-Attention Multimodal Framework (u-ACM), that integrates CT images and clinical notes using hybrid fusion strategies to improve diagnostic accuracy for appendicitis. The u-ACM leverages adaptive contextual filtering to dynamically remove irrelevant features, crossattention mechanisms to align features between modalities, and …

Overexpression And Biophysical And Functional Characterization Of A Recombinant Fgf21, Phuc Phan, Jason Hoang, Thallapuranam Krishnaswamy Suresh Kumar

Chemistry & Biochemistry Faculty Publications and Presentations

Fibroblast growth factor 21 (FGF21) is an endocrine FGF that plays a vital role in regulating essential metabolic pathways. FGF21 increases glucose uptake by cells, promotes fatty acid oxidation, reduces blood glucose levels, and alleviates metabolic diseases. However, detailed studies on its stability and biophysical characteristics have not been reported. Herein, we present the overexpression, biophysical characterization, and metabolic activity of a soluble recombinant FGF21 (rFGF21). The far-UV circular dichroism spectra of rFGF21 show a negative trough at 215 nm, indicating that the protein’s backbone predominantly adopts a β sheet conformation. rFGF21 shows intrinsic tyrosine fluorescence at 305 nm. Thermal …

Anxiety Reduction In Autism Spectrum Disorder Using Novel Deep-Pressure Cutaneous Stimulation Therapy, Aaron Andrews, Jordyn Huecker, Kennedy Madrid, Lorissa Thorpe, James Fini, Josilyn Zamora, Victoria Oyeniyi, Maura Hart, Amanda Page, James Barber, Chase Taylor, Halah Khan, Spencer Willardson, Kyle Bills Phd, Christina Small

Annual Research Symposium

No abstract provided.

Identifying Breathing, Swallowing, And Speech Biosignatures In Parkinson’S Disease Patients With Wearable Devices, Amanda Brandaris, Katherine Shishido, Rohaan Manzoor, Ethan Hampton, Karthik Jasty, Kelvin Guo, Anna Fish, Spencer Peterson, Ulrike H. Mitchell Phd, Phillip Sechtem Phd, Ccc-Slp, Paula Johnson Phd, Anton E. Bowden Phd, Miriam Cortez-Cooper Pt, Phd, Pamela I. Barney Msrt, Rrt, Ae-C, Nps, John A. Kriak Pharmd

Annual Research Symposium

No abstract provided.

Associations Between Social Determinants Of Health And Mental Health Disorders Among U.S. Population: A Cross-Sectional Study, S. Tanarsuwongkul

Faculty Publications

Aims

The impact of social determinants of health (SDOH) on mental health is increasingly realized. A comprehensive study examining the associations of SDOH with mental health disorders has yet to be accomplished. This study evaluated the associations between five domains of SDOH and the SDOH summary score and mental health disorders in the United States.

Methods

We analyzed data from a diverse group of participants enrolled in the All of Us research programme, a research programme to gather data from one million people living in the United States, in a cross-sectional design. The primary exposure was SDOH based on Healthy …

Advancing Prosthetic Technology: 3d-Printed Robotic Arm With Micro Linear Actuators, Vu Tran, Nathan Reed, Mahdi Yazdanpour

Posters-at-the-Capitol

The increasing demand for affordable and accessible prosthetic solutions has driven innovation in the field of robotics. In this project, we present the design and development of a 3D-printed robotic prosthetic arm aimed at addressing the challenges faced by individuals with upper limb amputations. Our prosthetic arm utilizes five micro linear actuators to achieve precise and naturalistic movement. The design of the prosthetic arm prioritizes affordability and accessibility, with a focus on leveraging 3D printing technology to reduce manufacturing costs and enable customization. The use of micro linear actuators offers advantages in terms of compactness, lightweight construction, and efficient power …

Novel Electrophysiological Biomarkers In Pediatric Drug Resistant Epilepsy And Genetic Epilepsy Syndromes, Sakar Rijal

Bioengineering Dissertations - Archive

Pediatric epilepsies, particularly those that are drug-resistant or genetically driven, represent some of the most complex neurological disorders encountered in childhood. Central to their pathophysiology is a disruption in the delicate balance between cortical excitation and inhibition (E/I), often resulting from impaired GABAergic interneuron function. This imbalance manifests as aberrant network dynamics and altered neural oscillations, giving rise to seizures and long-term cognitive impairments. In this thesis, we developed a translational framework to identify electrophysiological biomarkers that (i) assess cortical E/I imbalance and (ii) map epileptogenic zones, with the aim of enhancing diagnosis, guiding surgical planning, and informing therapeutic monitoring …

Excitation And Polarization Of Isolated Neurons By High-Frequency Sine Waves For Temporal Interference Stimulation, Iurii Semenov, Vitalii Kim, Giedre Silkuniene, Andrei G. Pakhomov

Bioelectrics Publications

The capacity of temporal interference (TI) stimulation to target deep brain regions without affecting nearby surface electrodes remains uncertain. Using artifact-free optical recording, we compare excitation patterns and thresholds in hippocampal neurons stimulated by “pure” and amplitude-modulated sine waves, representing TI waveforms near electrodes and at the target, respectively. We show that pure 2- and 20-kHz sine waves induce repetitive firing at rates that increase up to 60–90 Hz with stronger electric fields. Beyond this limit, action potentials merge into sustained depolarization, resulting in an excitation block. Modulating the sine waves at 20 Hz aligns firing with amplitude “beats” and …

The Effect Of Liquid Conductivity On A Helium Plasma Jet And The Hydrogen Peroxide Production, Edwin A. Oshin, M. Ziaur Rahman, Chunqi Jiang

Bioelectrics Publications

Understanding plasma-liquid interactions and the impact of the electrical conductivity (σ) of liquid on plasma is important for plasma applications in water treatment and medicine. Ultrapure water, phosphate-buffered saline (PBS) solution, biological media, and sodium chloride (NaCl) solutions at various concentrations were used in this study to provide a broad range of conductivity values ranging from 0.055 μS cm⁻¹ to 222 mS cm⁻¹. A helium atmospheric pressure plasma jet (APPJ) impinging on liquid was generated in ambient air using a hollow-needle electrode that was powered by 200 ns, 7 kV pulses at a pulse repetition frequency of …

Traction Force Microscopy Using An Epifluorescence Microscope: Experimental Considerations And Caveats, Zaria Booth, Mazen Mezher, Rudra Patel, Venkat Maruthamuthu

Mechanical & Aerospace Engineering Faculty Publications

Forces exerted by cells due to their internal contractility play fundamental roles in a host of processes, including adhesion, migration, survival and differentiation. Traction force microscopy (TFM) enables the determination of forces exerted by cells or cell collectives on their environment, which is typically taken to be an extra-cellular matrix (ECM)-coated substrate. Sample preparation for TFM involves the plating of cells onto an environment embedded with fiducial markers. The imaging of these fiducial markers in the presence and absence of the cells then enables calculation of the displacement of localized regions of the environment, and, consequently, the spatial distribution of …

Scaffolds With Spatiotemporally Controlled Growth Factor Delivery And Cyclodextrin-Enabled Antagonism Of Growth Factor Receptor Sequestration Promote Cutaneous Wound Healing, Jelena Marjanovic, Veronica Jurczuk, Lilian Valadares Tose, Yarixa Cintron Diaz, Francisco Fernandez Lima, Beatriz Abdo Abujamra, Sara Danker, Sinan Jabori, Devinder Singh, Jamie L. Burgess, Joshua Tam, Mohamadmahdi Samandari, Rivka C. Stone, Stephen C. Davis, Robert S. Kirsner, Marjana Tomic-Canic, Fotis M. Andreopoulos, Ivan Jozic

Mechanical & Aerospace Engineering Faculty Publications

Chronic wounds present a major burden to patients, health care professionals, and health care systems worldwide, yet treatment options remain limited and often ineffective. Although initially promising, growth factor-based therapies displayed limited and underwhelming effectiveness largely due to poor bioavailabilbioity and impaired receptor function within the chronic wound microenvironment. Here we demonstrate that chronic wounds exhibit elevated cholesterol synthesis, which disrupts growth factor signaling by sequestering receptors within lipid rafts. To address this, we developed a novel therapy combining growth factors with cyclodextrin in an ECM-mimetic scaffold, enabling localized cholesterol modulation and improved receptor accessibility. We demonstrate that this approach …

Burnout At University: Cross-Sectional Study Among Dental Students, Manal Elhijazi, Hajar Nafia, Ihsane Benyahya

Health Sciences

Context: The university constitutes a demanding and competitive learning environment which can impact the well-being of students. The objective of this survey is to assess the burnout of students at the faculty of dentistry.

Materials and methods: A cross-sectional study was conducted via an anonymous questionnaire with 3 sections: socio-demographic data, lifestyle and habit, and burnout through the Maslach burnout inventory-student survey (MBI-SS) . Continuous variables were presented as means and standard deviations,categorical variables as numbers and percentages. The variables were tested in univariate analysis to assess predictive factors related to burnout using the Khi-2 test. The significance level was …

Leveraging Deep Learning For The Automated Detection Of Hemophilic Arthropathy In Knee Radiographs, En-Wei Lin, Edzer Wu, Ming-Ching Shen, Shao-Li Han

Rehabilitation Practice and Science

Background/Purpose:

Hemophilic arthropathy (HA) is a progressive joint disease caused by recurrent hemarthroses in patients with hemophilia. Early radiographic identification of HA is critical for timely intervention and long-term joint preservation. This study aimed to develop and evaluate deep learning models for automated detection of HA in knee radiographs.

Methods:

A retrospective dataset of 849 knee radiographs (AP and lateral views) was used to train three convolutional neural networks: ResNet-34, DenseNet-121, and EfficientNet-B0. Model performance was assessed using standard classification metrics, including accuracy, precision, recall, F1-score, and AUC. Interpretability was evaluated using Grad-CAM heatmaps.

Results:

DenseNet-121 achieved balanced performance on …

Development And Clinical Validation Of The Sensor-E Exoskeleton For Objective Hand Function Assessment In Stroke Rehabilitation, Madison Bates

Theses and Dissertations--Biomedical Engineering

Hand function is often impaired following neurological trauma or in conditions such as stroke, limiting independence and the ability to perform activities of daily living (ADLs). Current clinical assessments rely heavily on subjective rating scales that lack the resolution to detect subtle changes in motor performance, which can limit access to rehabilitation. Recent advances in wearable technologies highlight the potential for hand-worn devices to provide objective, real-time measures of hand function. However, most systems focus solely on kinematics and rarely capture both movement and exerted force. Moreover, integration into rehabilitation frameworks and brain-computer interface (BCI) protocols remains limited. To address …

Ambulatory Arterial Stiffness Index: Regression Method Comparison And Its Association With Pulse Pressure And Circadian Patterns, José R. Ayala-Hernández, Cristina López-Sánchez, Orlando M. Ayala, Camilo E. Palencia-Tejedor

Engineering Technology Faculty Publications

The Arterial Stiffness Index (AASI) is a calculation obtained through Ambulatory Blood Pressure Monitoring (ABPM), and is an indirect measure of the elastic properties of the arterial wall; but there is heterogeneity in its scope as a predictor of vascular wall health. A comparison is made between linear regression and exponential regression of the AASI, as well as an analysis of variance, according to circadian patterns and pulse pressure (PP) values. This work is an analytical observational study in 106 individuals, most of them women (63%) with a mean age of 53 ± 17.32 years. The coefficient of determination (r2) …

Investigation Using Single Point Incremental Forming (Spif) To Fabricate Patient-Specific, Titanium Orbital Floor Implants, Elizabeth M. Mamros, Lauren E. Blaha Md, Christian A. Kauffman Md

Faculty Conference Papers and Presentations

The floor of the human orbit is composed of thin bone that is prone to traumatic fracture. This leads to a loss of support for the eye, which can cause vision changes. Therefore, fractures may need surgical reconstruction using a thin, sheet-like implant. Titanium implants are available off-the-shelf in standard sizes, but fitting to each patient’s unique anatomy requires surgeons to cut, file, and bend these plates. This can be time-consuming and imprecise. To both save time and ensure a perfect fit for the patient, a custom plate can be created prior to surgery. This investigation focuses on single-point incremental …

An Analytical Model Of Motion Artifacts In A Measured Arterial Pulse Signal—Part I: Accelerometers And Ppg Sensors, Md Mahfuzur Rahman, Subodh Toraskar, Mamun Hasan, Zhili Hao

Mechanical & Aerospace Engineering Faculty Publications

This paper, the first of two parts, presents an analytical model of motion artifacts (MAs) in measured pulse signals by accelerometers and photoplethysmography (PPG) sensors. As the transmission path from the true pulse signal in an artery to the sensor output (measured pulse signal), the tissue-contact-sensor (TCS) stack is modeled as a 1DOF (degree-of-freedom) system. MAs cause baseline drift of the mass and simultaneously time-varying system parameters (TVSPs) of the TCS stack. With arterial wall displacement and pulsatile pressure serving separately as the true pulse signal, an analytical model is developed to mathematically relate baseline drift and TVSP to a …