Digital Commons Network^™

Long Oligos: Direct Chemical Synthesis Of Genes With Up To 1728 Nucleotides, Yipeng Yin, Reed Arneson, Yinan Yuan, Shiyue Fang

Michigan Tech Publications

The longest oligos that can be chemically synthesized are considered to be 200-mers. Here, we report direct synthesis of an 800-mer green fluorescent protein gene and a 1728-mer Φ29 DNA polymerase gene on an automated synthesizer. Key innovations that enabled this breakthrough include conducting the synthesis on a smooth surface rather than within the pores of traditional supports, and the use of the powerful catching-by-polymerization (CBP) method for isolating the full-length oligos from a complex mixture. Conducting synthesis on a smooth surface not only eliminated the steric hindrance that would otherwise prevent long oligo assembly, but also, surprisingly, drastically reduced …

Crises, Coloniality, And Energy Transformations In Puerto Rico, Laura Kuhl, Marla Perez-Lugo, Carlos Arriaga Serrano, Cecilio Ortiz Garcia, Ryan Ellis, Jennie C. Stephens

Sociology Faculty Publications

Increased attention to inclusive processes is essential to ensure injustices are not perpetuated during energy transitions. Crises, such as the collapse of the electric grid in Puerto Rico after Hurricane Maria, present the promise of opening windows of opportunity for new ideas and voices to inform the future, but they also create opportunities for powerful interests to reinforce existing power dynamics. While coloniality has been recognized as a barrier to sustainable energy transformations, greater integration of the literature on climate coloniality and sustainability transitions is needed. This chapter analyzes visions of the future of the energy system among diverse constituents …

Assessing Arbuscular Mycorrhizal Fungal Community Composition And Diversity Across A Land-Use Gradient In Eastern Washington Prairies, Katherine I. Cole

EWU Masters Thesis Collection

Arbuscular mycorrhizal fungi (AMF) are key to healthy, functioning terrestrial ecosystems worldwide. Associating with over 80% of all extant land plants, they play a pivotal role in nutrient cycling, and contribute to overall plant health. Given their significance to terrestrial ecosystems, AMF have a crucial role to play in the successful restoration of Eastern Washington’s native prairies. However, AMF community composition is significantly altered by the commercial agricultural practices used extensively in this region for over 100 years. The Eastern Washington University (EWU) Prairie Restoration Project aims to restore ~120 acres of farmland to native prairie. This research provides insight …

Insights In Cybersecurity Of A Smart Campus - A Review, Mircea Ţălu

Journal of Cybersecurity Education, Research and Practice

The profound impact of the Internet of Things (IoT) on various fronts, is driven by technological advancements, the ubiquitous spread of information, and the emergence of transformative events. IoT presents a diverse array of possibilities within university environments, fostering a more connected and enhanced educational experience. This research undertakes a comprehensive review of existing literature to provide context to the IoT and underscore its crucial significance in the realm of smart campuses. Additionally, the paper explores the intricate connections between IoT and key concepts such as cybersecurity and wireless sensor networks to present a holistic perspective. It delves into the …

Computational Approaches For Diagnosing Neurological Impairments And Restoring Functional Movement, Serhii Bahdasariants

Graduate Theses, Dissertations, and Problem Reports (ETD)

Movement is the primary means by which the nervous system converts intention into interaction with the environment. Voluntary limb motion enables standing, walking, reaching, and grasping—actions that underpin self‑care, communication, and economic participation. When diseases or injuries disrupt the pathways that couple neural commands to muscle forces—whether through cortical stroke, spinal cord injury, or peripheral nerve damage—mechanical outcomes such as weakness, loss of coordination, and ultimately reduced mobility emerge. These impairments cascade into secondary complications, increased dependence on caregivers, and diminished quality of life. Quantifying how the lesion alters the mechanics of movement is therefore essential for designing targeted interventions …

Rational Design Of Small Molecules Targeting Mitochondrial Redox Proteins, Matheus Barbosa Belchior

Graduate Theses, Dissertations, and Problem Reports (ETD)

Reactive oxygen species play a crucial role in many cellular processes. Despite being a natural byproduct of cellular metabolism, overexpression of these species causes damage to the cell, leading to cell dysfunction. Central to the regulation of these highly reactive molecule is the mitochondria. Impairment in its function has been associated with oxidative stress within the cell. Herein, a ligand-based and structure-based approach to design new small molecules to inhibit mitochondrial redox proteins associated with oxidative stress and reactive oxygen species. In the first project two molecules were synthesized and characterized as potential monoamine oxidase B inhibitors. Results showed two …

Using Visual Prompts To Analyze Ejection Fraction In Echocardiograms, Kevin Reisch

Graduate Theses, Dissertations, and Problem Reports (ETD)

Left ventricular ejection fraction (LVEF) is a critical biomarker for heart failure, but manual estimation from echocardiograms is time-consuming. Artificial intelligence can be used to accelerate this process, allowing clinicians to focus on other critical tasks. Current methods typically train models from scratch on echocardiogram datasets; however, this approach is limited by the scarcity of large medical imaging datasets, which are expensive and difficult to acquire. We present a transfer learning approach that leverages pretrained models from massive datasets, enabling continuous improvement as foundation models advance. Our method employs visual prompting to generate trainable masks for echocardiogram videos, transforming the …

3d Printed Microfluidic Platforms For Elisa-Based Diagnostics: Advancing Toward Point Of Care, Brandi Marie Binkley

Graduate Theses, Dissertations, and Problem Reports (ETD)

Protein biomarker detection is a critical analytical method for quantifying proteins in biological samples. It is relevant not only in medical diagnostics and research but also numerous other fields such as environmental monitoring, pharmacology, food safety, and biotechnology. Sensitive detection at picogram-per-milliliter (pg/mL) levels is essential for diagnosing diseases, monitoring progression, and tailoring treatments, especially for low-abundance biomarkers like troponin, interleukin 6, carcinoembryonic antigen (CEA), activin A, and vascular endothelial growth factor (VEGF). Immunoassays, particularly enzyme-linked immunosorbent assays (ELISAs), are the gold standard for protein biomarker detection due to their high specificity and sensitivity. The development of point-of-care (POC) diagnostic …

An Adaptive Method For Covariate Balancing In Block Randomized Clinical Trials, Ren Rasnick

Theses and Dissertations

Clinical trials are randomized in part to limit allocation bias, but also to ensure comparability between treatment arms for a baseline variable of concern. Comparable with regard to a baseline variable of concern is necessary for the validity of statistical methods. However, comparability is not guaranteed for trials of any size and is even more likely in trials with < 200 total participants. We propose a new method for adapting the allocation of participants in a sequentially allocated two-armed study with a small sample size to better ensure comparability.

The proposed method calculates the expected final imbalance (lack of comparability) based on the current participant values. Unlike several other methods, our method ensures the final desired sample size for each treatment arm, utilizes the expected final imbalance, increases comparability between …

Swarming Segregation: Leveraging Swarm Intelligence And Regionalization As Instruments For School District Desegregation, Jeffrey Wooten

Theses and Dissertations

Even after Brown led to the South briefly having the most diverse schools in the nation, schools throughout the Northeast have remained the most segregated in the nation for decades. While federal jurisprudence has made compelling desegregation pursuant to the Equal Protection Clause more challenging, New Jersey has a particularly favorable landscape to address severe segregation. With a highly diverse, densely populated public enrollment, favorable state constitutional precedent, and a history of successfully compelling desegregation, New Jersey is fertile ground exploring regional desegregation. Scholars, judges, and even plaintiffs in ongoing litigation (Latino Action Network v. N.J.) have called for New …

An Overview Of Video Game Biometrics Collection And Considerations For Cyberbiosecurity, Lucas Potter, Christen Westberry, Xavier-Lewis Palmer

Electrical & Computer Engineering Faculty Publications

Over the past fifty years, the global cost of consumer electronics has significantly decreased, leading to greater accessibility to both biosensing systems and interactive entertainment platforms. This increased access has naturally resulted in higher usage of medical and entertainment electronics. However, the intersection of these technologies, combined with invasive data harvesting practices, has raised concerns about the potential misuse of biological signals to manipulate individuals' behavior both within and beyond the video game environment. Currently, biometric data in video games are employed in various ways, such as using Heart Rate Variability (HRV) as a performance metric and integrating eye tracking …

Adaptive Fusion Neural Networks For Sparse-Angle X-Ray 3d Reconstruction, Shaoyong Hong, Bo Yang, Yan Chen, Hao Quan, Shan Liu, Minyi Tang, Jiawei Tian

Electrical & Computer Engineering Faculty Publications

3D medical image reconstruction has significantly enhanced diagnostic accuracy, yet the reliance on densely sampled projection data remains a major limitation in clinical practice. Sparse-angle X-ray imaging, though safer and faster, poses challenges for accurate volumetric reconstruction due to limited spatial information. This study proposes a 3D reconstruction neural network based on adaptive weight fusion (AdapFusionNet) to achieve high-quality 3D medical image reconstruction from sparse-angle X-ray images. To address the issue of spatial inconsistency in multi-angle image reconstruction, an innovative adaptive fusion module was designed to score initial reconstruction results during the inference stage and perform weighted fusion, thereby improving …

Leveraging Large Language Models To Create Learner Personas For Training Design, N. Lovett, M. Yang, K. Herman, B. Li, M. Sosonkina, W. Purwanto, P. Jiang, M. H. Wu

Electrical & Computer Engineering Faculty Publications

This case examines the innovative use of Large Language Models (LLMs) to generate learner personas for developing learner-centered cybersecurity training materials when direct access to initial learner data is not available. The team developed a nine-stage iterative process for creating and refining AI-generated personas to address this constraint, integrating ethical review, stakeholder feedback, and action research principles. The process expanded upon Kouprie and Visser’s (2009) empathic design framework to ensure cultural responsiveness and mitigate potential biases in LLM outputs. Through multiple refinement cycles, initial generic personas evolved into detailed, context-rich archetypes which informed the development of effective and context-responsive training …

A Novel Intelligent Thermal Feedback Framework For Electric Motor Protection In Embedded Robotic Systems, Mohamed Shili, Salah Hammedi, Hicham Chaoui, Khaled Nouri

Electrical & Computer Engineering Faculty Publications

As robotic systems advance in autonomy and sophistication while being used in uncertain environments, the challenge of building reliable and robust electric motors that are embedded into robotic systems has never been a more important engineering problem. Thermal distress caused by extended operation or excessive loading can negatively affect a motor’s performance and efficiency and lead to catastrophic hardware failure. This paper proposes a novel intelligent control framework that includes real-time thermal feedback for hybrid electric motors that are embedded into robotic systems. The framework relies on adaptive control techniques and lightweight machine learning techniques to estimate internal motor temperatures …

Energy-Aware Sensor Fusion Architecture For Autonomous Channel Robot Navigation In Constrained Environments, Mohamed Shili, Hicham Chaoui, Khaled Nouri

Electrical & Computer Engineering Faculty Publications

Navigating autonomous robots in confined channels is inherently challenging due to limited space, dynamic obstacles, and energy constraints. Existing sensor fusion strategies often consume excessive power because all sensors remain active regardless of environmental conditions. This paper presents an energy-aware adaptive sensor fusion framework for channel robots that deploys RGB cameras, laser range finders, and IMU sensors according to environmental complexity. Sensor data are fused using an adaptive Extended Kalman Filter (EKF), which selectively integrates multi-sensor information to maintain high navigation accuracy while minimizing energy consumption. An energy management module dynamically adjusts sensor activation and computational load, enabling significant reductions …

Advances In Battery Modeling And Management Systems: A Comprehensive Review Of Techniques, Challenges, And Future Perspectives, Seyed Saeed Madani, Yasmin Shabeer, Ananthu Shibu Nair, Michael Fowler, Satyam Panchal, Carlos Ziebert, Hicham Chaoui, Shi Xue Dou, Khay See, Saad Mekhilef, Françios Allard

Electrical & Computer Engineering Faculty Publications

Energy storage systems (ESSs) and electric vehicle (EV) batteries depend on battery management systems (BMSs) for their longevity, safety, and effectiveness. Battery modeling is crucial to the operation of BMSs, as it enhances temperature control, fault detection, and state estimation, thereby maximizing efficiency and preventing malfunctions. This paper thoroughly examines the most recent advancements in battery and BMS modeling, including data-driven, thermal, and electrochemical methods. Advanced modeling approaches are explored, including physics-based models that incorporate mechanical stress and aging effects, as well as artificial intelligence (AI)-driven state estimation. New technologies that facilitate data-driven decision-making, real-time monitoring, and simplified systems include …

Symp25s: A Multi-View Feature Construction And Multi-Encoder-Decoder Transformer Architecture For Time Series Classification, Zihan Li, Wei Ding, Inal Mashukov, Ping Chen, Scott Crouter

Paul English Applied Artificial Intelligence (AI) Institute Publications

Time series data plays a significant role in many research fields since it can record and disclose the dynamic trends of a phenomenon with a sequence of ordered data points. Time series data is dynamic, of variable length, and often contains complex patterns, which makes its analysis challenging especially when the amount of data is limited. In this paper, we propose a multi-view feature construction approach that can generate multiple feature sets of different resolutions from a single dataset and produce a fixed-length representation of variable-length time series data. Furthermore, we propose a multi- encoder-decoder Transformer (MEDT) architecture to effectively …

Automating The Amino Acid Identification In Elliptical Dichroism Spectrometer With Machine Learning, Ridhanya Sree Balamurugan, Yusuf Asad, Tommy Gao, Dharmakeerthi Nawarathna, Umamaheswara Rao Tida, Dali Sun

Electrical & Computer Engineering Faculty Publications

Amino acid identification is crucial across various scientific disciplines, including biochemistry, pharmaceutical research, and medical diagnostics. However, traditional methods such as mass spectrometry require extensive sample preparation and are time-consuming, complex and costly. Therefore, this study presents a pioneering Machine Learning (ML) approach for automatic amino acid identification by utilizing the unique absorption profiles from an Elliptical Dichroism (ED) spectrometer. Advanced data preprocessing techniques and ML algorithms to learn patterns from the absorption profiles that distinguish different amino acids were investigated to prove the feasibility of this approach. The results show that ML can potentially revolutionize the amino acid analysis …

Mxene-Based Materials For Enhanced Water Quality: Advances In Remediation Strategies, Ali Mohammad Amani, Milad Abbasi, Atena Najdian, Farzaneh Mohamadpour, Seyed Reza Kasaee, Hesam Kamyab, Shreeshivadasan Chelliapan, Mostafa Shafiee, Lobat Tayebi, Ahmad Vaez, Atefeh Najafian, Ehsan Vafa, Sareh Mosleh-Shirazi

Electrical & Computer Engineering Faculty Publications

Two-dimensional MXenes are promising candidates for water treatment because of their large surface area (e.g., exceeding 1000 m²/g for certain structures), high electrical conductivity (e.g., >1000 S/m), hydrophilicity, and chemical stability. Their strong sorption selectivity and effective reduction capacity, exemplified by heavy metal adsorption efficiencies exceeding 95 % in several studies, coupled with facile surface modification, make them suitable for removing diverse contaminants. Applications include the removal of heavy metals (e.g., achieving >90 % removal of Pb(II)), dye removal (e.g., demonstrating >80 % removal of methylene blue), and radioactive waste elimination. Furthermore, 3D MXene architecture exhibit enhanced performance in antibacterial …

Augmentation Of Quality Of Service, Security, And Trust In Edge-Enhanced Iot Networks Leveraging Blockchain, Kyle Matthew Whitlatch

Masters Theses

The meteoric rise of the Internet of Things (IoT) has led to multiple architectural schemas to handle the data these devices create. Edge-enhancement is a technique where groups of IoT report to a median layer to aggregate the data before relaying to the endpoint. These edges also open opportunities to perform more operations to ensure devices are behaving properly before committing the data to long term storage. By interconnecting these edges with a technology like blockchain, it is possible to have an interconnected and responsive system to ensure the Quality of Service (QoS) of the IoT devices within the architecture …

Performance Of Standard Medical Mllms On Ecg Image Data, Prisha Anil

Masters Theses

This work presents a structured benchmarking study of multimodal large language models (MLLMs) applied to electrocardiogram (ECG) interpretation tasks. We evaluate three representative architectures: MedGemma, HuatuoGPT-Vision, and LLaVA-Med, across progressive experimental stages involving text-only structured prompt normalization, text–image fusion with ECG plots, and full multimodal fusion incorporating time-series signals. A standardized five-section cardiology prompt was designed to enforce consistent output structure and SCP-code alignment, enabling reproducible metric computation across models. Quantitative evaluation using BERTScore, token-level F1, and diagnostic accuracy demonstrates that HuatuoGPT-Vision achieves the highest semantic and diagnostic alignment, while MedGemma exhibits superior formatting stability and reproducibility. In contrast, LLaVA-Med …

Multimodal Spatio-Temporal Pest Prediction In Precision Agriculture, V N S Kameswari Sri Sindhu Manchikanti

Masters Theses

Accurate and timely prediction of pest outbreaks is a cornerstone of Agriculture 5.0, which emphasizes intelligent, data-driven, and sustainable decision-making in crop production. This research presents a multimodal deep learning framework that integrates heterogeneous data sources, including weather parameters, satellite-derived vegetation indices, and static and dynamic soil attributes, to forecast pest population dynamics under varying management and ecological conditions. The proposed framework employs modality-specific deep encoders to capture distinct temporal and spatial representations from each data stream and merges them through a late-fusion architecture that learns cross-modal dependencies critical to pest emergence. The design further incorporates treatment-aware and multiclass extensions, …

Relationship Extraction Using Retrieval Augmented Generation For Biomedical Dataset, Jannat Jannat

Theses and Dissertations

With the increasing number of structured and unstructured data, obtaining reliable information effectively has become crucial. In the biomedical domain, extracting information from the scientific papers is crucial in order to stay up-to-date with accurate information, given the increased pace by which new research studies are published. This work focuses on identifying relationships between entities that are extracted from the abstracts and titles of biomedical research papers. In this work, we developed a Retrieval Augmented Generation (RAG) based system to automatically identify relations between biomedical entities. We evaluate multiple open source Large Language Models (LLMs) and the number of examples …

Synthesis And Characterization Of Free Radical Scavenging Dendrimer Nanogels Via Cross-Linking Reaction-Enabled Flash Nanoprecipitation, Lin Qi, Da Huang, Huari Kou, Anna Chernatynskaya, Nuran Ercal, Hu Yang

Chemistry Faculty Research & Creative Works

This work reports the development and evaluation of dendrimer-based nanogels based on Poly amidoamine (PAMAM) dendrimer generation 5, engineered to act as a carrier with reactive oxygen species (ROS)-scavenging capabilities. We developed a cross-linking reaction-enabled flash nanoprecipitation method in which the cross-linking reaction occurs during the flash nanoprecipitation process to form a cross-linked nanostructure. Using this approach, an N-hydroxy succinimide (NHS)-functionalized ROS-responsive thioketal cross-linker (TK-NHS) was synthesized and utilized to cross-link DAB-core PAMAM dendrimer G5, resulting in the formation of G5-TK nanogels. The resulting nanogels were characterized using dynamic light scattering and transmission electron microscopy, and their cytocompatibility, irritancy, cellular …

Scalable Fabrication Of High-Payload Dendrimer-Based Nanoparticles For Targeted Atherosclerosis Therapy, Huari Kou, Lin Qi, Da Huang, Jiandong Wu, Honglan Shi, Hu Yang

Chemistry Faculty Research & Creative Works

Nanoparticle-based therapeutics hold promise for the treatment of atherosclerosis, but challenges such as low drug-loading capacity and a lack of scalable, controllable production hinder their clinical translation. Flash nanoprecipitation, a continuous synthesis method, offers a potential solution for scalable and reproducible nanoparticle production. In this study, we employed a custom-designed multi-inlet vortex mixer to perform cross-linking reaction-enabled flash nanoprecipitation, facilitating controlled and scalable synthesis of cross-linked Poly amidoamine (PAMAM) dendrimer nanoparticles. Notably, this approach allows simultaneous nanoparticle cross-linking and drug loading in a single step. The mannose moiety enabled specific targeting of macrophages via mannose receptors, enhancing the localization of …

Characterizing The Transient Emission Of Particles And Gases From A Single Puff Of Electronic Cigarette Smoke, Kashala Fabrice Kapiamba, Steven Achterberg, Ta Chun Lin, Philip D. Whitefield, Yue-Wern Huang, Yang Wang

Chemistry Faculty Research & Creative Works

This study employed high-time-resolution systems to examine the transient properties of aerosols and gases emitted from electronic cigarette (EC) puffs. Using a fast aerosol sizer, we measured particle size distributions (PSDs) across various EC brands (JUUL, VUSE, VOOPOO), revealing sizes ranging from 5 to 1000 nm at concentrations of 107 to 1010 cm-3. Most aerosols were found to be in the ultrafine range (below 100 nm), with JUUL-, VUSE-, and VOOPOO-producing aerosols with geometric mean sizes of 19.9, 47.3, and 29.4 nm, respectively. Applying the International Commission on Radiological Protection (ICRP) deposition model and assuming no further evolution of aerosols …

Cold Atmospheric Plasma Induced Degradation Of Organophosphate Pesticides On Kevlar Swatches, Ta Chun Lin, Victor Somtochukwu Mbanugo, Boluwatife Stephen Ojo, Yue-Wern Huang, Marek Locmelis, Frank Daoru Han

Biological Sciences Faculty Research & Creative Works

Cold atmospheric plasma (CAP) was evaluated for degrading organophosphate pesticide (OP) residues (acephate, malathion, and dimethoate) from Kevlar fabrics. Fourier transform-Infrared (FTIR) spectroscopy, scanning electron microscope (SEM) imaging and tensile strength testing confirmed that CAP treatment preserved Kevlar's structural integrity and mechanical properties. Results show degradation efficiency increased with higher power, shorter discharge gaps, and longer exposure duration. Hyperspectral imaging supported the detection of plasma-induced spectral changes, reinforcing the presence of reactive species. The strong oxidative potential of CAP facilitated the rapid breakdown of OPs into nontoxic byproducts. These findings demonstrate the potential of CAP as a portable, energy-efficient solution …

Death By Design: A Biological Approach To Container Security, Alexander Hunter Moomaw

EWU Masters Thesis Collection

Microservice architectures are central to modern cloud computing and have become the dominant design pattern for scalable, distributed applications. Kubernetes is often the tool used for rapid deployment and orchestration of microservices. A known issue for large networks clusters is a malicious actor can compromise a vulnerable cluster in minutes. Their ability to quickly compromise vulnerable clusters highlights the urgent need for stronger security. This project views cluster defense through a preemptive security lens, introducing the Cluster Life cycle Management System (CLMS). Inspired by the biological process of apoptosis, CLMS systematically replaces aging containers and services to prevent exploitation of …

Bridging Prairie Restoration And Regenerative Agriculture With Compost Tea / The Rocket Incident: Post-Fire Soil Microbe Recovery On The Eastern Washington University Restoration Site, April Hersey

EWU Masters Thesis Collection

Inland Pacific Northwest prairie is an endangered ecosystem that has been reduced by conversion to agriculture. There is growing interest in the role of soil microorganisms in prairie ecosystems, which may be crucial for restoration of the plant community through interspecies interactions within the rhizosphere. One method for improving soil microorganism community composition is compost tea: enriched liquid compost extract. Compost tea is used in regenerative agriculture to improve crop yields and protect against pathogens. While research has supported compost tea application in regenerative agriculture, it has not been widely studied in the context of ecosystem restoration. After beginning a …

Classiffication Of Mild Cognitive Impairment Based On Dynamic Functional Connectivity Using Spatio-Temporal Transformer, Jing Zhang, Yanjun Lyu, Xiaowei Yu, Lu Zhang, Chao Cao, Tong Chen, Minheng Chen, Yan Zhuang, Tianming Liu, Dajiang Zhu

Computer Science Faculty Research & Creative Works

Dynamic functional connectivity (dFC) using resting-state functional magnetic resonance imaging (rs-fMRI) is an advanced technique for capturing the dynamic changes of neural activities and can be very useful in the studies of brain diseases such as Alzheimer's disease (AD). Yet, existing studies have not fully leveraged the sequential information embedded within dFC that can potentially provide valuable information when identifying brain conditions. In this paper, we propose a novel framework that jointly learns the embedding of both spatial and temporal information within dFC based on the transformer architecture. Specifically, we first construct dFC networks from rs-fMRI data through a sliding …