Computer Sciences Commons^™

A Comprehensive Survey Of Prompt Engineering Techniques In Large Language Models, Tonmoy Debnath, Md Nurul Absar Siddiky, Muhammad Enayetur Rahman, Prosenjit Das, Antu Kumar Guha, Muhammad Rezaur Rahman, H. M. Dipu Kabir

Electrical & Computer Engineering Faculty Publications

Prompt engineering has arisen as a pivotal discipline in optimizing the performance of Large Language Models (LLMs) by structuring inputs to enhance coherence, accuracy, and task alignment. This paper comprehensively surveys various prompting techniques, systematically categorizing them according to their application domains and methodological foundations. Fundamental approaches like zero-shot and few-shot prompting are examined along with advanced strategies, including chain-of-thought reasoning, retrieval-augmented generation, and self-consistency mechanisms. A rigorous qualitative analysis is conducted to evaluate each technique's strengths, limitations, and optimal use cases, offering a structured framework for selecting the most effective prompting strategies. Theoretical insights and empirical findings are consolidated …

Physics-Informed Temperature Prediction Of Lithium-Ion Batteries Using Decomposition-Enhanced Lstm And Bilstm Models, Seyed Saeed Madani, Yasmin Shabeer, Michael Fowler, Satyam Panchal, Carlos Ziebert, Hicham Chaoui, François Allard

Electrical & Computer Engineering Faculty Publications

Accurately forecasting the operating temperature of lithium-ion batteries (LIBs) is essential for preventing thermal runaway, extending service life, and ensuring the safe operation of electric vehicles and stationary energy-storage systems. This work introduces a unified, physics-informed, and data-driven temperature-prediction framework that integrates mathematically governed preprocessing, electrothermal decomposition, and sequential deep learning architectures. The methodology systematically applies the governing relations to convert raw temperature measurements into trend, seasonal, and residual components, thereby isolating long-term thermal accumulation, reversible entropy-driven oscillations, and irreversible resistive heating. These physically interpretable signatures serve as structured inputs to machine learning and deep learning models trained on temporally …

Markov Chain Wave Generative Adversarial Network For Bee Bioacoustic Signal Synthesis, Kumudu Samarappuli, Iman Ardekani, Mahsa Mohaghegh, Abdolhossein Sarrafzadeh

Electrical & Computer Engineering Faculty Publications

This paper presents a framework for synthesizing bee bioacoustic signals associated with hive events. While existing approaches like WaveGAN have shown promise in audio generation, they often fail to preserve the subtle temporal and spectral features of bioacoustic signals critical for event-specific classification. The proposed method, MCWaveGAN, extends WaveGAN with a Markov Chain refinement stage, producing synthetic signals that more closely match the distribution of real bioacoustic data. Experimental results show that this method captures signal characteristics more effectively than WaveGAN alone. Furthermore, when integrated into a classifier, synthesized signals improved hive status prediction accuracy. These results highlight the potential …

Mtl_Tx: A Multi-Task Transformer Model For Improved Radiation Time-Series Estimation, Hongfang Zhang, Adam Stavola, Hal Ferguson, Bence Budavari, Hongyi Wu, Chiman Kwan, Jiang Li

Electrical & Computer Engineering Faculty Publications

Controlling radiation doses at potential radioactive facilities is critical to ensuring the safety of both personnel and the public. At the Thomas Jefferson National Accelerator Facility (JLab), multiple sensors are deployed around the three experimental halls to monitor key parameters, including single-beam current, energy levels, current leakage, and radiation values during accelerator operations. In this study, we developed a Multi-task Transformer model, MTL_TX, to accurately estimate radiation doses at sensor locations based on historical data, with the aim of enhancing safety in accelerator facilities and surrounding public areas. To improve estimation accuracy, we integrated two innovative components into the proposed …

Machine Learning-Based Lifetime Prediction Of Lithium Batteries: A Comparative Assessment For Electric Vehicle Applications, Abdelilah Hammou, Raffaele Petrone, Demba Diallo, Boubekeur Tala-Ighil, Philippe Makany Boussiengue, Hicham Chaoui, Hamid Gualous

Electrical & Computer Engineering Faculty Publications

This paper evaluates and compares four data-driven methods (Gaussian Process Regression (GPR), echo state network (ESN), gated recurrent unit (GRU), and long short-term memory (LSTM)) for lithium-ion capacity prognostics adapted to electric vehicle conditions. This comparison aims to find the most efficient prognosis method considering two constraints: the limitation of computational power and the unavailability of on-board capacity measurement that requires full charge and discharge conditions. The machine learning models are trained using capacity values estimated under vehicle conditions. The ageing data is collected from cycling tests of two battery chemistries, Lithium Fer Phosphate (LFP) and Nickel Manganese Cobalt (NMC), …

Healthcare Digital Twins: A Methodological Literature Review On Integrating Iot And Ai For Personalized Medicine And Predictive Care, Sara Shahnazinia, Mahsa Tavasoli, Abdolhossein Sarrafzadeh, Ali Karimoddini

Electrical & Computer Engineering Faculty Publications

Digital Twin (DT) technology has the potential to revolutionize healthcare delivery and enhance patient outcomes through personalized and precision medicine, simulation models for operations and interventions, and drug discovery. However, successful implementation of DTs in Internet of Things (IoT) and artificial intelligence (AI) healthcare is contingent upon addressing key challenges such as privacy, ethics, and robust data security. This paper presents a methodological literature review of DT applications in healthcare, systematically analyzing the current state of research, key enabling technologies, and implementation challenges. The review summarizes DT categorization approaches (application-based, technology-based, and real-time function-based); delineates core DT components such as …

An Explainable Cs-Mitigation Triangular (Ecsmt) Framework To Secure Graph Neural Networks, Sabah Ettahri, Sergio Pallas Enguita, Chung-Hao Chen, Wen-Chao Yang

Electrical & Computer Engineering Faculty Publications

This research addresses cyber risk by defending against backdoor attacks on Graph Neural Networks (GNNs). We propose the Explainable Complex System-Mitigation Triangular (ECSMT) Framework, which integrates Robust Training, Graph Regularization, and Data Sanitization into a lightweight, hardware-efficient defense layer. To evaluate structural generalizability, we conducted empirical evaluations across three distinct benchmark domains (AIDS, MUTAG, and PROTEINS) using a Graph Isomorphism Network (GIN) backbone. Under a baseline 5% backdoor subgraph trigger injection ratio, ECSMT achieves excellent utility retention, securing a Clean Accuracy (CA) of 97.33% (±0.62%) while reducing the Attack Success Rate (ASR) from 97.00% down to 69.45% on the primary …

The Crucial Role Of Machine Learning Models In Predicting Current Childhood Asthma: Model Comparison, Calibration, And Shap-Based Interpretation, Aditya Chakraborty, A. K.M. Raquibul Bashar

Epidemiology, Biostatistics, & Environmental Health Faculty Publications

Background: Asthma is one of the most prominent chronic diseases in children and one of the most challenging ailments to diagnose in infants and preschoolers in the United States. Predictive models can be instrumental in improving early diagnosis, personalized treatment strategies, and disease progression. By utilizing nationalized data, this study focuses on building and comparing high-performing analytical predictive models based on the relevant risk factors and identifying the most influential predictors.

Methods: We analyzed cross-sectional BRFSS Asthma Call-Back Survey data (2011-2020; N = 9,813) and randomly split participants into training and testing sets. An XGBoost model (hyperparameters tuned via grid …

Digital Twin Technologies For Battery Systems: Advancements, Applications, And Future Directions, Seyed Saeed Madani, Yasmin Shabeer, Michael Fowler, Satyam Panchal, Carlos Ziebert, Hicham Chaoui, François Allard

Electrical & Computer Engineering Faculty Publications

The relationships among deep learning, edge computing, artificial intelligence (AI), and the most recent advancements in digital twin (DT) technology for battery energy storage systems are discussed in this paper. The study highlights the need for improved cloud-edge coordination, AI model development, and stronger cybersecurity features by demonstrating real-world applications of digital twin technology in electric vehicles (EVs), aircraft, and grid storage. It also described DT-based structures for fault detection, real-time monitoring, and optimization through standardization and battery management system (BMS) fusion. Because DT-based solutions for distributed energy resources (DERs) offer improved energy management systems, various studies have been conducted …

Gem-Can: A Real-World Dataset Of Can-Bus Attack Scenarios On An Autonomous Vehicle For Intrusion-Detection Research, Mahsa Tavasoli, Abdolhossein Sarrafzadeh, Ali Karimoddini, Tienake Phuapaiboon, Milad Khaleghi, Daniel Tobias

Electrical & Computer Engineering Faculty Publications

This paper presents GEM-CAN, a labelled Controller Area Network (CAN) dataset captured from an autonomous GEM e6 platform under both normal operation and controlled cyber-attack conditions.

The dataset contains ∼143 K frames comprising (i) ∼ nominal autonomous operation (∼100k messages), (ii) DoS floods using arbitration ID 0 × 00000000 (∼41 K messages), and (iii) data-tampering injections that reuse legitimate IDs for brake and steering-lock (∼1.3 K messages). Each record includes timestamp, arbitration ID (11/29-bit), DLC, eight payload bytes, and a Normal/Attack label. A companion metadata file enumerates attack windows, PCAN bus-load traces, bitrate, and test conditions. Data were collected with …

Interpretable Battery Soh Prediction: A Comparative Interpretability Framework For Multi-Architecture Ml Models, Shafiyee Islam, Gon Namkoong

Electrical & Computer Engineering Faculty Publications

This work introduces a unified interpretability-efficiency framework for lithium-ion battery state of health (SOH) prediction using hybrid deep learning architectures. We comparatively analyze four hybrid models: CNN LSTM MultiHead, CNN Feature Extractor LSTM, DNN LSTM, and DNN BiLSTM to disentangle how network topology, feature composition, and computational design influence both predictive fidelity and physical interpretability. By integrating Monte Carlo Shapley (MC Shapley), background occlusion SHAP (BoSHAP), and ablation analysis, we quantify the contribution and robustness of five electrochemical feature groups: time, capacity, voltage, dQ/dV and peaks of dQ/dV from NASA battery dataset. The results reveal a consistent dominance of differential …

Generative Ai-Driven Optimization In Flexible And Reconfigurable Manufacturing Systems, Salah Hammedi, Hicham Chaoui, Lotfi Nabli

Electrical & Computer Engineering Faculty Publications

Flexible and Reconfigurable Manufacturing Systems (FRMSs) are essential for coping with variability in modern production environments; however, efficient scheduling and rapid reconfiguration remain challenging. This paper presents a hybrid optimization framework that integrates Colored Petri Net (CPN) modeling with Generative Artificial Intelligence (GenAI) to enhance scheduling performance and system adaptability. The CPN formalism ensures verifiable modeling of system dynamics, while a transformer-based generative model produces candidate scheduling and reconfiguration strategies. Simulation experiments were conducted under static, dynamic, and adaptive scenarios, including machine breakdowns and dynamic job arrivals. Performance was evaluated using makespan, mean flow time, machine utilization, and reconfiguration latency. …

Affordable Course Content And Open Education Resources For Undergraduate Courses Teaching Fundamentals Of Wireless Communications And Networking, Dimitrie C. Popescu, Otilia Popescu

Electrical & Computer Engineering Faculty Publications

Wireless communication systems and networks along with the services they provide have become an essential component of the modern 21st century society, fueling job growth in the wireless industry and increasing the need for engineers specialized in wireless communication systems. As a consequence, over the past two decades, undergraduate courses teaching fundamentals of wireless communication systems and networks have become common in electrical and computer engineering and technology programs. At the same time, the number of textbooks dedicated to wireless systems and networks published by mainstream publishers has also grown, with availability in various formats and offerings and a significant …

Multi-Grade Deep Learning, Yuesheng Xu

Mathematics & Statistics Faculty Publications

Deep learning requires solving a nonconvex optimization problem of a large size to learn a deep neural network (DNN). The current deep learning model is of a single-grade, that is, it trains a DNN end-to-end, by solving a single nonconvex optimization problem. When the layer number of the neural network is large, it is computationally challenging to carry out such a task efficiently. The complexity of the task comes from learning all weight matrices and bias vectors from one single nonconvex optimization problem of a large size. Inspired by the human education process which arranges learning in grades, we …

Mg-Spair: Multi-Grade Sparse-Guided Implicit Representation For Training-Data-Free Image Restoration, Jianmin Liao, Lei Huang, Ronglong Fang, Ashley Prater-Bennette, Lixin Shen, Yuesheng Xu

Mathematics & Statistics Faculty Publications

MG-SpaIR is a training-data-free framework for restoring a clean image from a single observation corrupted by a mixture of blur, downsampling, noise, and missing pixels. Building on implicit neural representations (INRs), we introduce a multi-grade residual hierarchy that progressively refines the reconstruction from low to high spatial frequencies across grades, improving representational fidelity and mitigating spectral limitations. To stabilize reconstruction optimization and suppress INR-induced artifacts, we further propose an explicit sparse proximal regularization (e.g., ℓ0 type) applied directly in the high-resolution image domain, which discourages spurious high-frequency patterns while preserving sharp structures. The resulting optimization is solved efficiently via a …

Short-Term Response Mechanisms Of Water Quantity And Quality Of Daihai Lake Under Temperature-Driven Changes, Hao Zhang, Xiaohong Shi, Xianhua Li, Junping Lu, Ruizhong Gao, Xixi Wang, Shuhao Zhang, Longmei Xie, Yu Liu

Civil & Environmental Engineering Faculty Publications

Temperature-driven mechanisms involving complex feedback and lag that affect the evolution of hydrological processes and ecological functions in cold- and arid-region lakes represent a core scientific issue in current hydrology and lake ecology research. In this study, based on month-scale temperature and environmental factor data from Daihai Lake in Inner Mongolia from January to December 2023, statistical methods (redundancy analysis, Tukey's test analysis, correlation analysis, structural equation modeling), time series analysis methods (dynamic time warping), and machine learning methods (random forest) were combined. A hierarchical and phased response framework was constructed that encompassed driver identification, path tracing, lag characterization, and …

Examining Inclusive Computing Education For Blind Students In India, Akshay Kolgar Nayak, Yash Prakash, Md Javedul Ferdous, Sampath Jayarathna, Hae-Na Lee, Vikas Ashok

Computer Science Faculty Publications

The growing demand for computer professionals, driven by the expanding Information Technology industry, has led to numerous inclusive computing education efforts. These efforts have even included blind or visually-impaired (BVI) students, who are being increasingly encouraged to pursue education and a career in computing, despite the visually-oriented nature of the discipline. Extant literature has predominantly focused on identifying and addressing the accessibility barriers faced by BVI students to promote more inclusive learning environments. While few studies have also investigated the accessibility of computing education from the perspectives of BVI learners and instructors, these have been primarily situated in the Global …

Voxvista: Enhancing Screen Reading Experience For Online User Comments, Yash Prakash, Akshay Kolgar Nayak, Mohammed Shoaib Alyaan, Sampath Jayarathna, Hae-Na Lee, Vikas Ashok

Computer Science Faculty Publications

Online discussions have become integral to how people exchange ideas, form opinions, and participate in collective deliberation. While sighted users can comfortably engage with online discussions, blind users who are dependent on screen readers are forced to listen to long threads narrated in a single, monotonic voice that lacks prosodic variation, rhythm, or emotion. This robotic auditory experience not only deteriorates the user engagement with the content but also increases cognitive strain, by making it difficult to remain attentive and discern meaning beyond literal words. In an interview study, most blind participants reported that monotonous narration hindered their ability to …

The Privacy Paradox Of Llms: User Perceptions And The Reality Of Pii Leakage, Shuai Cheng, Haitao Xu, Shu Meng, Shuai Hao, Chuan Yue, Zhao Li

Computer Science Faculty Publications

Large language models (LLMs) are increasingly deployed, yet they introduce significant privacy risks by disclosing personally identifiable information (PII) during interactions. Although prior work has demonstrated the feasibility of extracting PII from LLMs, no comprehensive study has evaluated the actual extent of PII leakage across mainstream LLMs or investigated user perceptions, literacy, and behavioral responses to these risks. To address these gaps, we conduct a large-scale evaluation of PII leakage in popular LLMs, demonstrating that attackers can extract email addresses and phone numbers with high success rates. Through a mixed-methods study involving 20 interviews and 204 survey participants, we identify …

Towards Supporting Real-Time Estimation Of Vehicle Fuel Consumption And Co2 Emissions In Smart City Applications, Abrar Alali, Stephan Olariu

Computer Science Faculty Publications

This paper evaluates a simplified physics-based energy demand model designed to estimate vehicle fuel consumption and CO₂ emissions—a critical tool for sustainable transportation planning and smart city applications. Unlike data-driven regression models that lack generalizability for user-defined conditions or complex physics-based approaches that rely on extensive, often proprietary data, the simplified model is distinguished by its minimal parameter requirements, depending primarily on a single, overarching powertrain efficiency value. A key contribution is the comprehensive empirical evaluation of the simplified model against official Environmental Protection Agency (EPA) test data across multiple driving cycles and vehicle types, providing a rigorous validation previously …

Stochastic Fractional-Order Memristive Fuzzy Bam Neural Networks With Time Delays And Leakage Term For Finite-Time Stability Analysis, J. Kumar, M. Syed Ali, Sumaya Sanober, Mohammad Yarish, Abeer M. Alotaibi, Tarek F. Ibrahim

Computer Science Faculty Publications

In this study, a finite-time stability analysis with time delays and a leakage term is conducted on stochastic fractional-order memristive fuzzy BAM neural networks. FOMFBAMNNs are developed using set-valued map theories as well as differential inclusion. We obtained several significant adequate criteria of uniform stability in the mean square of such networks by using analytical methods and inequality approaches, such as Cauchy–Schwarz inequality and Burkholder–Davis–Gundy inequality. In addition to examining two different fractional-order derivatives between the U-layer and V-layer synchronously with fractional order, the existence, uniqueness, and stability of its equilibrium point are also shown ½ ≤ α ≤ 1. …

Exploring Marshall–Olkin Models Through Bibliometric And Topic Modeling Approaches Uses Latent Dirichlet Allocation (1981-2025): A Study Based On Scopus Data, Humberto Llinás, Brian Llinás, Carlos López, Daniela Nuñez

Computer Science Faculty Publications

The Marshall–Olkin family of distributions has gained increasing attention in fields such as reliability engineering, survival analysis, financial risk modeling, and actuarial science because of its flexibility in modeling dependence among events and its wide range of extensions. Despite its growing relevance, a systematic understanding of how research on Marshall–Olkin models has evolved over time is still limited. This study addresses this gap by combining bibliometric techniques with topic modeling to analyze the structure and evolution of the scientific literature on Marshall–Olkin models. The analysis includes all 266 peer-reviewed publications on Marshall–Olkin models indexed in Scopus between 1981 and 2025. …

Finding The Signal In The Noise: An Exploratory Study On Assessing The Effectiveness Of Ai And Accessibility Forums For Blind Users' Support Needs, Satwik Ram Kodandaram, Jiawei Zhou, Xiaojun Bi, Iv Ramakrishnan, Vikas Ashok

Computer Science Faculty Publications

Accessibility forums and, more recently, generative AI tools have become vital resources for blind users seeking solutions to computer-interaction issues and learning about new assistive technologies, screen reader features, tutorials, and software updates. Understanding user experiences with these resources is essential for identifying and addressing persistent support gaps. Towards this, we interviewed 14 blind users who regularly engage with forums and GenAI tools. Findings revealed that forums often overwhelm users with multiple overlapping topics, redundant or irrelevant content, and fragmented responses that must be mentally pieced together, increasing cognitive load. GenAI tools, while offering more direct assistance, introduce new barriers …

Exploring Large Language Models For Trustworthy Use: Insights From Research And Development, Sandeep Kalari, Sahithi Padidela, Vikas Ashok, Ravi Mukkamala

Computer Science Faculty Publications

Large Language Models (LLMs) are increasingly being adopted in a wide variety of domains, including sensitive domains such as healthcare and finance. However, persistent challenges such as unreliable data sources, privacy breaches, and hallucinated output continue to hinder their usage. We have experimented with several strategies to address these challenges. First, we developed BlockQwen, a blockchain-augmented framework that integrates decentralized trust validation, role-specific access control, and verifiable audit trails into the Qwen 2.5 LLM workflow. Second, we developed PrivAware, a multilayered privacy-enforcement framework, using a fine-tuned Flan-T5 model with self-attention masking, to safeguard data while maintaining high utility. Both systems …

An Explainable Transformer Framework For Sentiment Analysis In Aviation Workforce Data, Sovon Chakraborty, Protiva Das, Fahmid Al Farid, Fuyad Hasan Bhoyan, Farig Yousuf Sadeque, Jia Uddin, Hezerul Abdul Karim

Computer Science Faculty Publications

Aviation is one of the predominant sectors that contribute significantly to the global economy. With the advent of technology, this industry is witnessing a paradigm shift towards data-driven approaches. The morale of the airline employees is barely noticed, which causes fatigue and depression. Furthermore, these mental health issues can be active reasons for destructive accidents. In this research, the authors are focused on collecting insightful information on aviation employees from Glassdoor.com. Moreover, the authors focus on analyzing the sentiments of the employees of renowned aviation companies. Primarily, the authors scraped necessary data from Glassdoor.com and created a dataset named JetJobJoy …

Maxgrnet: A Multi-Axis Vision Transformer With Improved Generalization For Eye Disease Classification Using Explainable Ai With Insertion-Deletion Operations On Fundus Images, Md Mehedi Hasan Santo, Fuyad Hasan Bhoyan, Fuad Ibne Jashim Farhad, Fahmid Al Farid, Sovon Chakraborty, Md Humaion Kabir Mehedi, Jia Uddin, Hezerul Bin Abdul Karim

Computer Science Faculty Publications

Eye diseases, including diabetic retinopathy (DR), glaucoma, and cataracts, represent a major global health concern and can lead to severe visual impairment or blindness if not identified in a timely manner. This study proposes a novel eye disease classification framework based on a multi-axis vision transformer (MaxViT) applied to color fundus images with Explainable Artificial Intelligence (XAI) techniques to enhance model transparency. The proposed architecture integrates transformer-based attention mechanisms with Global Response Normalization (GRN)-based multi-layer perceptron (MLP) layers to capture complex spatial and contextual relationships within fundus images effectively. The model was evaluated on a publicly available eye disease classification …

Variational Autoencoder Inverse Mapper For Extraction Of Compton Form Factors: Benchmarks And Conditional Learning, Douglas Adams, Md Fayaz Bin Hossen, Joshua Bautista, Gia-Wei Chern, Simonetta Liuti, Marie Boër, Marija Čuić, Michael Engelhardt, Gary R. Goldstein, Huey-Wen Lin, Yaohang Li

Computer Science Faculty Publications

Deeply virtual exclusive scattering processes (DVES) serve as precise probes of nucleon quark and gluon distributions in coordinate space. These distributions are derived from generalized parton distributions (GPDs) via Fourier transform relative to proton momentum transfer. QCD factorization theorems enable DVES to be parameterized by Compton form factors (CFFs), which are convolutions of GPDs with perturbatively calculable kernels. Accurate extraction of CFFs from DVCS, benefiting from interference with the Bethe–Heitler (BH) process and a simpler final state structure, is essential for inferring GPDs. This paper focuses on extracting CFFs from DVCS data using a variational autoencoder inverse mapper (VAIM) and …

Privacy-Preserving Federated Learning With Optimized Ensemble Weighting And Knowledge Distillation For Covid-19 Detection From Non-Iid Medical Imaging Data, Richard Annan, Hong Qin, Robert Newman, Madhuri Siddula, Letu Qingge

Computer Science Faculty Publications

Medical imaging enables rapid and accurate diagnosis of COVID-19, with CT scans proving especially effective. However, data privacy concerns limit collaborative model development across hospitals. To address this issue, we introduce a novel federated learning framework. It is referred to as Independent Knowledge Distillation with post-Ensemble Federated Learning (IKDEFL). Differential Privacy (DP) is integrated into the framework to improve privacy guarantees. Three DP mechanisms are evaluated. These include Fixed Gaussian, Gaussian Adaptive, and Tree Adaptive. The evaluation has been conducted on heterogeneous and Non-Independent and Identically Distributed (Non-IID) datasets. These datasets reflect real-world hospital scenarios. Results show that IKDEFL significantly …

Biosecure-Llm Framework: Protecting Llms From Cyberbiosecurity Threats And The Case For Independent Ai Safety Governance, Xavier-Lewis Palmer, Lucas Potter, Srdjan Lesaja, Sotirios Karathanasis, Mohammad Ghasemigol

Computer Science Faculty Publications

Large Language Models (LLMs) are becoming critical infrastructure in scientific, healthcare, and governmental contexts. As frontier AI laboratories increasingly partner with government agencies, a fundamental question arises: Who should control the safety and policy-enforcement layers that constrain model behavior? Current safety mechanisms (LLM guardrails) are typically designed for generic "harmlessness" and operate by detecting semantic patterns and refusing requests. However, they are inadequate governance instruments because they cannot implement auditable, domain-specific controls tied to external regulatory policy objects (e.g., control lists or rules governing personally identifying information). Even a perfectly aligned model is not able to express institution-specific policy without …

Explainable Convolutional Neural Network Model Provides An Alternative Genome-Wide Association Perspective On Mutations In Sars-Cov-2, Parisa C. Hatami, Richard Annan, Luis Miranda, Jane L. Gorman, Mengjun Xie, Letu Qingge, Hong Qin

Computer Science Faculty Publications

Identifying informative genomic features in SARS-CoV-2 can help clarify patterns of viral evolution. In this study, we developed an explainable convolutional neural network (CNN) model to classify SARS-CoV-2 genomic sequences into the WHO-designated Variants of Concern (VOCs), Alpha, Beta, Gamma, Delta, and Omicron. Using a balanced dataset of genomes, the classification CNN achieved 99.96% accuracy on the held-out test set. To interpret the model’s predictions, we applied SHapley Additive exPlanations (SHAP) to estimate the contribution of each nucleotide position to VOC-label prediction and compared aggregated attributions with a chi-square GWAS baseline applied to the same categorical labels. SHAP prioritized several …