Biomedical Engineering and Bioengineering Commons^™

The Impact Of Human Myoblasts On Macrophage Polarization In A Coculture Model, Elisabeth Ann Stodola

Biomedical Engineering

Peripheral Artery Disease (PAD) is characterized by the buildup of atherosclerotic plaque in the lower extremities that occludes blood flow, and affects over 200 million people worldwide. Without effective treatment, PAD can lead to claudication, ischemia, ulcers, and gangrene. PAD causes more amputations in the United States than any other condition, and for severe cases that require revascularization, procedures benefit fewer than 50% of patients. This demonstrates a clear need for alternative therapies. Potential therapies for PAD target expansion of collateral blood vessels around the area of occlusion – a process called arteriogenesis to compensate for loss of blood flow …

Development Of An Automated Platform For Cell Biology Experiments, Dipendra Nepal

Shelby Hall Graduate Research Forum Posters

Cell biology experiments involve repetitive tasks such as pipetting, sample preparation, and imaging, which are typically performed manually. These manual processes can introduce variability, reduce efficiency, and increase the cost of biomedical research. To address these challenges, our lab is developing a modular robotic platform, iEye™, to automate key steps in cell biology workflows [1]. The system is designed as self-contained modules, allowing flexible development and integration of different functionalities. In this work, we focus on a sample preparation module that integrates a 6-degree-of-freedom robotic arm, a motorized stage, and a pneumatic pipetter. This module is being developed to automate …

Ai Driven Assessment For Clinical Scenarios, Sudhanshu Tarale, Bhushan Lohar, Ninad Pandit

Shelby Hall Graduate Research Forum Posters

Beta 1 captured granular data to validate the system’s ability to measure clinical thoroughness and deliver real-time feedback. Data collection formally approved by the USA IRB (Protocol 25 037; #22849172).

Design And Validation Of A Wearable Respiratory Protection System For Wildland Firefighters, Oliver Pilon

Master's Theses

Wildland and Wildland–Urban Interface firefighters are routinely exposed to hazardous smoke with fine particulate matter, carbon monoxide, volatile organic compounds, and other toxic combustion products. Existing protective gear has significant limitations and shortcomings for these conditions. Respirators with tight-fitting facepieces make it difficult to breathe and speak. On the other hand, self-contained breathing apparatuses are too heavy, have a limited duration of use, and do not work well with long wildland fire scenes, while smaller protective equipment like N-95’s and gaiters provide very little protection. These constraints contribute to low adoption rates and prolonged occupational exposure.

This thesis presents the …

Orthopedic Bone Drill, Logan G. Schmid, Matthew T. Wold, May Geng

Biomedical Engineering

This project aims to design a bone drill for orthopedic procedures which alleviates the heat generated in the bone during drilling.

Improving Cellular Retention And Distribution To Promote Arteriogenesis In A Mouse Model Of Chronic Arterial Occlusion, Nancy Huang

Biomedical Engineering

Peripheral Arterial Occlusive Disease (PAOD) affects millions of people in the United States, creating pain, discomfort, and limited mobility due to restricted blood flow from obstructed arteries. While current treatments include lifestyle changes and revascularization procedures, these options are often insufficient or inaccessible because of procedural pain and socioeconomic barriers. In some cases, this can lead to critical limb ischemia and amputation as a last resort. Increasing blood flow to the extremities by enhancing collateral vessel growth, a biological process called arteriogenesis, with cell-based therapies can redirect blood flow around obstructions and has potential to mitigate and treat the effects …

Cpap Belly Prevent, Alek Corpuz, Emma Hoffman, Danielle Tran

Biomedical Engineering

Neonates with low gestation periods often face complications such as respiratory distress syndrome, or RDS, which increases risk for complications such as necrotizing enterocolitis. Use of bCPAP helps facilitate regular breathing, but can also force air into the stomach and consequently cause abdominal distention. Clinicians currently use an already inserted feeding tube to vent the accumulated air, however this interrupts the feeding process.

The PreVent device was developed to allow for simultaneous feeding and venting. The dual function minimizes interruptions to NICU nurse workflow and improves capability to relieve abdominal distention before the onset of adverse complications.

Iud Insertion Pain Management, Sandhya Sridhar, Olivia Armas, Lucy Campochiaro

Biomedical Engineering

This project focuses on developing an atraumatic cervical stabilization device that serves as a modern alternative to the traditional tenaculum used during IUD insertion procedures. Current devices rely on sharp metal prongs that pierce the cervix and often cause significant pain and bleeding. The goal of this project is to design a device that provides the same stability and control for clinicians while eliminating the need to puncture cervical tissue. The device is intended to be used by gynecologists, nurse practitioners, physician assistants, primary care physicians, or any medical professional performing an IUD insertion. The device is intended to be …

Ƒ(Cell): Software For Reproducible Analysis Of Optoretinograms, Robert F. Cooper, Mina Gaffney, Brea D. Brennan, Niko Rios

Biomedical Engineering Faculty Research and Publications

Purpose: There has been a marked increase in use of a noninvasive functional imaging technique called optoretinography (ORG). As more groups use ORGs, it is crucial to have a consistent methodology, and understand what analysis parameters influence repeatability. In this work, we present an open-source software library called ƒ(Cell) designed to facilitate reproducible and repeatable analyses of ORG data.

Methods: We designed ƒ(Cell) as a Python software library that can co-register and analyze ORG datasets, while also enabling process auditing. To validate the software, we used our previously obtained normative optoretinography datasets as well as datasets from six …

Fixel-Based Analysis Of Pretreatment Mri Identifies White Matter Abnormalities In Pediatric Anti-Nmdar Encephalitis, Daniel Ackom, Janine Taitt-Tap, Scott A. Beardsley, Ricardo Vega, Alyssa Jobe, Andrew J. D. Crow, Brian Schmit, Lileth Mondok, Pradeep Javarayee

Biomedical Engineering Faculty Research and Publications

Anti-N-methyl-D-aspartate receptor (anti-NMDAR) encephalitis is an autoimmune disorder in which conventional MRI often appears normal, leading to clinical–radiologic dissociation and hindering early diagnosis and monitoring. We retrospectively studied five pediatric patients with anti-NMDAR encephalitis and compared their pretreatment diffusion MRI to age- and sex-matched controls. Using fixel-based analysis (FBA), we quantified tract-specific white matter abnormalities at the individual level. All patients showed significantly reduced fiber density and cross-section, with patterns ranging from focal to widespread involvement. In two patients, FBA abnormalities corresponded to seizure lateralization on EEG despite normal MRI, emphasizing FBA's added value in detecting seizure-concordant injury. One patient, …

Improving Interlimb Coordination And Paretic Limb Use After Stroke Using A Novel Robotic Split-Crank Pedaling Device: A Cross-Sectional Study, Tom S. Ruopp, Brian Schmit, Sheila Schindler-Ivens

Biomedical Engineering Faculty Research and Publications

Background. Many stroke survivors cannot walk effectively, even after rehabilitation. Causes include impaired muscle activation, poor interlimb coordination, and limited restorative interventions. To address this, we developed CUped (pronounced “cupid”), a motorized split-crank pedaling device designed to compel use of the paretic limb and retrain interlimb coordination. We examined its within-session effects, comparing three proportional control schemes—assist (A), resist (R), and assist plus resist (A + R)—to identify which best promotes recovery-related movement.

Methods. Nineteen individuals with stroke and eleven controls pedaled in 5-min bouts, one per control scheme. Each bout included pre-test, exposure, and post-test periods. Participants were instructed …

Newborn Spinal Needle, Allison Inouye, Kyle Morton, Evan Russell

Biomedical Engineering

Spinal punctures, or lumbar punctures, are important diagnostic procedures used to collect cerebrospinal fluid (CSF) to diagnose issues in the central nervous system (CNS) such as meningitis. While these procedures are routinely performed on adult and neonatal patients, the current tools are not optimized for use on newborns. Existing spinal needles are often modified versions of adult devices, leading to challenges in fluid collection efficiency, user ergonomics, and patient safety when used in neonatal care.

The Newborn Spinal Needle Project aims to design and develop a spinal needle specifically optimized for neonatal anatomy and clinical workflow. The goal is to …

Babycheck, Ayla V. Campbell, Eleanor M. Tweedy

Biomedical Engineering

The BabyCheck project was created to design and test a device that can collect a small blood sample from the fetal scalp during labor. The goal is to reduce uncertainty when fetal heart rate tracings are unclear, especially in Category II cases where it can be difficult for clinicians to decide the safest next step. Current monitoring methods either rely on interpreting heart rate patterns or use more invasive procedures to gather biochemical information. BabyCheck was designed to provide a simpler and more controlled way to collect a small blood sample that could help guide these decisions.

The final prototype …

Plm-Effector: Unleashing The Potential Of Protein Language Models For Bacterial Secreted Protein Prediction, Dandan Zheng, Lihong Chen, Guansong Pang, Jian Yang

Research Collection School Of Computing and Information Systems

Bacterial secreted proteins, particularly effectors delivered by specialized secretion systems, are key mediators of virulence and host-pathogen interactions. However, accurate computational identification remains challenging, as many existing methods rely heavily on sequence similarity or handcrafted features, and often focus on a single secretion system. Recent studies have reported that some bacterial effectors may be associated with more than one secretion system, highlighting the complexity of secretion system annotation and motivating the development of system-aware computational prediction approaches. Here, we present PLM-Effector, a hybrid deep learning framework that integrates modern protein language models (PLMs) with multiple neural architectures via a two-layer …

Tourniquet Tester, Tyler Offerman, Thuy Nguyen, Ryan Ly, Cody Hoeptner

Biomedical Engineering

The Tourniquet Tester is a device intended to be used as a standardized testing device for tourniquets. Due to the lack of a standard testing device for testing tourniquets that can produce accurate and reproducible results, it is difficult to test the efficacy of tourniquets currently being sold on the market. A standard testing device that can produce consistent and reproducible results would allow tourniquet manufacturing companies to properly test the efficacy of their product and develop proper guidelines and directions for users of the product. Medical professionals and military personnel who may use tourniquets in their line of work …

Jaundease Phototherapy Vest Test Plan, Sujay Panthulu, Jasdev Banwait, Gwynn Moss, Solomon M. Fernandez

Biomedical Engineering

Neonatal hyperbilirubinemia is a common condition affecting more than 60% of newborns, caused by an excess buildup of bilirubin in the blood due to the liver’s limited ability to process it efficiently [1]. The standard treatment involves hospital-based phototherapy, where infants are placed in incubators under blue light to break down bilirubin in the skin. Although effective, this approach requires infants to remain under the lights for 12–18 hours per day, often with eye protection, and separated from their parents—disrupting early bonding and potentially contributing to toxic stress that can impact neurological and emotional development [2]. While at-home phototherapy solutions …

Balancing Carbon Emissions In Façade Of Residential Buildings Through Bim-Lca: A Comparative Analysis Of Insulation Materials, Mehran Alipour

Journal of Sustainable Construction Materials and Technologies

Thermal insulation materials play a significant role in balancing buildings' total carbon emissions. Balancing involves applying the optimized amount of insulation materials to avoid excessive emissions in either the operational or embodied phases. Due to the wide range of insulation materials and variations of their specifications, it is vital to analyse them individually. The focus of this study is to optimize the amount of insulation materials in the facades of Residential Buildings (RB) to balance the amount of Operational Carbon Emissions (OCE) and Embodied Carbon Emissions (ECE) by applying the Building Information Modelling-Life Cycle Assessment (BIM-LCA) integration method. The Life …

Nanoscale Opportunities In Extracellular Matrix Mimicry, L. Andrew Lyon, Abbygail Caine, Elif Narbay, E. Daniel Cárdenas-Vásquez

Engineering Faculty Articles and Research

We present an overview of the composition, function, energetics, and dynamics of extracellular matrix and its relation to nanoscale structures and phenomena. These concepts are then related to the development of synthetic and biosynthetic materials that aim to mimic the extracellular matrix for regenerative medicine and tissue engineering technologies. Notable successes and advancements towards the goal of biomimicry are outlined, while remaining challenges and knowledge gaps towards that goal are highlighted. Finally, we frame the remaining challenges in the field in terms of nanoscience-related research opportunities that if solved, might prove to be transformative steps forward in the discipline.

Integrating Sustainable Material Procurement In Construction Waste Management: A Systematic Review With Narrative Synthesis For The Libyan Construction Sector, Ramzi Fouzi Hamad Abdullah, Safaa N Saud Al-Humairi, Zunirah Binti Mohd Talib

Journal of Sustainable Construction Materials and Technologies

Integrating sustainable material procurement with construction waste management is essential to reduce construction and demolition waste in Libya, where current practices remain largely reactive and disposal-oriented. This narrative review aims to develop a conceptual framework linking procurement decisions to waste-generation pathways in Libyan construction projects, clarifying how proactive, sustainability-driven purchasing can serve as a primary driver of waste prevention. Using a PRISMA-guided systematic search of Web of Science, Scopus, and IEEE Xplore for 2001–2026, and a bibliometric analysis via VOSviewer, 956 high-quality studies were synthesized to map global knowledge and to expose the paucity of integrated SMP–CWM studies in developing …

Sound Insulation Performance Of Sustainable Lc3 Mortars With Barite And Waste Rubber Aggregates, Begüm Söyek Abay, Leyla Tanaçan

Journal of Sustainable Construction Materials and Technologies

This study investigates the potential of limestone calcined clay cement (LC3) as a sustainable binder for developing a single-layer composite material incorporating barite and rubber aggregates, hypothesized to achieve enhanced sound insulation performance compared to conventional multi-layered wall systems. Mortars were prepared using LC3 with 55% clinker, 30% metakaolin, 15% limestone, substituting 45% of cement clinker. Hybrid mixtures of barite and rubber aggregates (barite-to-rubber volume ratios of 2:1 and 1:2) were tested at aggregate-to-binder ratios of 2.0, 2.75, and 3.5 to evaluate their combined mass and damping effects on acoustic performance. Experiments were conducted to determine physical, mechanical, and acoustic …