Data Science Commons^™

Metsdb: A Knowledgebase Of Cancer Metastasis At Bulk, Single-Cell And Spatial Levels, Sijia Wu, Jiajin Zhang, Yanfei Wang, Xinyu Qin, Zhaocan Zhang, Zhennan Lu, Pora Kim, Xiaobo Zhou, Liyu Huang

Faculty, Staff and Student Publications

Cancer metastasis, the process by which tumour cells migrate and colonize distant organs from a primary site, is responsible for the majority of cancer-related deaths. Understanding the cellular and molecular mechanisms underlying this complex process is essential for developing effective metastasis prevention and therapy strategies. To this end, we systematically analysed 1786 bulk tissue samples from 13 cancer types, 988 463 single cells from 17 cancer types, and 40 252 spots from 45 spatial slides across 10 cancer types. The results of these analyses are compiled in the metsDB database, accessible at https://relab.xidian.edu.cn/metsDB/. This database provides insights into alterations in …

Crisprofft: Comprehensive Database Of Crispr/Cas Off-Targets, Grant Wang, Xiaona Liu, Aoqi Wang, Jianguo Wen, Pora Kim, Qianqian Song, Xiaona Liu, Xiaobo Zhou

Faculty, Staff and Student Publications

The CRISPR (clustered regularly interspaced short palindromic repeats)/Cas (CRISPR-associated protein) programmable nuclease system continues to evolve, with in vivo therapeutic gene editing increasingly applied in clinical settings. However, off-target effects remain a significant challenge, hindering its broader clinical application. To enhance the development of gene-editing therapies and the accuracy of prediction algorithms, we developed CRISPRoffT (https://ccsm.uth.edu/CRISPRoffT/). Users can access a comprehensive repository of off-target regions predicted and validated by a diverse range of technologies across various cell lines, Cas enzyme variants, engineered sgRNAs (single guide RNAs) and CRISPR editing systems. CRISPRoffT integrates results of off-target analysis from 74 studies, encompassing …

On Solving Differential Equations Describing The Ecology Of Shallow Lakes: A Comparison Of Classical And Modern Computational Methods Through Python, Vruddhi Kapre, Jeffrey R. Anderson, Alessandro Maria Selvitella

Spora: A Journal of Biomathematics

In this exposition paper, we describe some computational methodologies to solve numerically differential equations modeling the shallow lake ecosystem, with particular focus on the dynamics of the phosphorus. We describe in detail Python implementations of classical algorithms, like Runge-Kutta, and more modern approaches, including physics-informed neural networks.

On The Sharpness Of A Korn’S Inequality For Piecewise H1 Space And Its Applications, Qingguo Hong, Young Ju Lee, Jinchao Xu

Mathematics and Statistics Faculty Research & Creative Works

In this paper, we investigate the sharpness of a Korn's inequality for piecewise H1 space and its applications. We first revisit a Korn's inequality for the piecewise H1 space based on general polygonal or polyhedral decompositions of the domain. We express the Korn's inequality with minimal jump terms. Then we prove that such minimal jump conditions are sharp for achieving the Korn's inequality. The sharpness of the Korn's inequality and explicitly given minimal conditions can be used to test whether any given finite element spaces satisfy Korn's inequality, immediately as well as to build or modify nonconforming finite elements for …

Successfully Navigating The Disruption Ai Will Bring To Survey Research, David M. Rothschild, Trent D. Buskirk, Stephanie Eckman, D. Sunshine Hillygus, Frauke Kreuter, David Lazer

Information Technology & Decision Sciences Faculty Publications

Surveys are a core methodological tool in government, industry, and academia, providing essential data for theory development and evidence-based decision-making. As artificial intelligence continues its rapid advancement, it stands to fundamentally transform the entire survey lifecycle - from design and administration to analytics and reporting. Previous transitions to new technologies, such as telephone, internet, and non-probability surveys, led to divisions within the survey research community with real consequences for both the trajectory of research and trust in the industry. We believe the survey community should take proactive steps now to avoid similar challenges with AI integration. Specifically, our paper examines …

Empirical Vulnerability Function Development Based On The Damage Caused By The 2014 Chiang Rai Earthquake, Thailand, Patcharavadee Hong, Masashi Matsuoka

Institute for Innovation & Entrepreneurship Publications

Seismic hazards in Thailand are frequently overlooked in disaster management planning, leading to insufficient research and significant economic losses during earthquake events. The 2014 Chiang Rai earthquake exposed critical vulnerabilities in Thailand's building practices due to widespread non-compliance with building codes and limited preparedness. This exposure prompted the development of empirical vulnerability functions using loss data from 15,031 damaged residences. The study analyzed government compensation records, which were standardized using replacement cost metrics. Three distinct models were developed through probabilistic and possibilistic modeling approaches. Residual analysis demonstrated the superior performance of the possibilistic approach, with the Possibilistic-based Vulnerability Function achieving …

Predicting Superconducting Critical Temperature From Composition-Derived Features: A Transparent Linear And Regularized Regression Study, Md Ahiduzzaman

Data Science and Data Mining

We study prediction of superconducting critical temperature (Tc) from 81 composition-derived descriptors across 21,263 materials. To keep the analysis transparent and repro- ducible, we focus on linear models: Ordinary Least Squares (OLS), Ridge, Lasso, and Elastic Net (ENet). All models share a single evaluation protocol (5-fold cross-validation with standardized inputs) and are compared on RMSE, MAE, and R2. On this feature set, OLS attains the best cross-validated performance (RMSE = 17.6 K, MAE = 13.3 K , R2 = 0.735), with Lasso/ENet essentially tied next (RMSE ≈ 17.7 K , R2 ≈ 0.734); Ridge underperforms (RMSE = 18.9 K , …

Comparative Analysis Of Lasso, Ridge, And Elastic Net For Variable Selection In High-Dimensional Maize Data, Md Ahiduzzaman

Data Science and Data Mining

In high-dimensional genomic data analysis, traditional linear regression techniques often struggle due to the presence of a large number of predictor variables relative to observations. Penalized regression methods such as LASSO, Ridge, and Elastic Net have emerged as effective solutions by imposing regularization, which helps in managing multicollinearity and enhancing prediction accuracy. This study applies these techniques to the Maize dataset to model the time to male flowering, selecting relevant genetic markers as predictors. Our findings suggest that Elastic Net is particularly effective for high-dimensional data with correlated variables, achieving a balance between prediction accuracy and variable selection. The results …

Landslide At River's Edge: Alum Bluff, Apalachicola River, Florida, Joann Mossa, Yin-Hsuen Chen

Center for Geospatial Science, Education & Analytics Faculty Publications

When rivers impinge on the steep bluffs of valley walls, dynamic changes stem from a combination of fluvial and mass wasting processes. This study identifies the geomorphic changes, drivers, and timing of a landslide adjacent to the Apalachicola River at Alum Bluff, the tallest natural geological exposure in Florida at similar to 40 m, comprising horizontal sediments of mixed lithology. We used hydrographic surveys from 1960 and 2010, two sets of LiDAR from 2007 and 2018, historical aerial, drone, and ground photography, and satellite imagery to interpret changes at this bluff and river bottom. Evidence of slope failure includes a …

Technology-Facilitated Abuse (Tfa): Analyzing Trends, Tactics, And Victim Responses On Reddit, Solomon G. Dandekar

Computer Science and Engineering Theses - Archive

The increasing integration of technology into daily life has provided numerous benefits but also significant risks, particularly when exploited by malicious actors in cases of technology facilitated abuse (TFA). Per- petrators can misuse technology to monitor, control, and intimidate their partners, random strangers, etc. exacerbating cycles of abuse. From location tracking and cellphone surveillance to smart device manipula- tion, spyware, and doxing, digital tools have become powerful instruments for coercion and control. This research project investigates the role of technology in stalking and harassment by analyzing discussions on a relevant subreddit where victims share their experiences, strategies for coping, and …

Scalable Approaches Towards Characterizing And Mitigating Emerging Phishing Scams, Sayak Saha Roy

Computer Science and Engineering Dissertations - Archive

Phishing scams are among the most dangerous and persistent forms of cybercrime, leveraging social engineering to exploit human behavior and obtain sensitive information, leading to widespread identity theft and data breaches. In the past year, these attacks have resulted in financial losses exceeding $10 billion in the United States alone. As phishing scams continue to evolve, they have not only expanded in scale but also grown in sophistication, spreading rapidly across social media and employing adversarial techniques to evade detection by anti-scam tools. The situation is further exacerbated by the availability of advanced phishing kits, and more recently, generative AI, …

Classification Of Variable Stars Using Convolutional Neural Network, Abhina Premachandran Bindu

Dissertations and Theses

This research focuses on developing Convolutional Neural Networks (CNNs), for the process of classifying and identifying variable stars through the analysis of unprocessed light curves from Transiting Exoplanet Survey Satellite (TESS). As astronomical data is becoming increasingly complex, and as advanced missions deploy sophisticated instruments for data collection, both the quality and quantity of the data are improving at a rapid pace. This has created an urgent need to automate the analysis process using efficient and effective methods, such as those based on machine learning. While previous research has explored machine learning approaches, there has been limited focus on implementing …

Handwritten Digit Recognition Using Machine Learning Classifiers, Md Ahiduzzaman

Data Science and Data Mining

This project explores and compares the performance of various machine learning classifiers for handwritten digit recognition using the MNIST dataset. The classifiers include Logistic Regression, k-Nearest Neighbors, and Convolutional Neural Networks. Each classifier is evaluated based on accuracy, precision, recall, F1-score, and confusion matrix analysis.

Comparative Analysis Of Machine Learning Models For Glioblastoma Survival., Muna Awel

All Graduate Theses, Dissertations, and Other Capstone Projects

Glioblastoma multiforme (GBM) remains one of the most lethal brain tumors, necessitating improved survival prediction models that integrate clinical and molecular data. This study develops a comprehensive machine learning pipeline leveraging TCGA-derived multi-omics datasets to predict binary survival outcomes. The framework integrates four classifiers Logistic Regression, Random Forest, XGBoost, and Support Vector Machine (SVM) and includes rigorous preprocessing with MCAR testing, KNN imputation, feature scaling, and hyperparameter optimization via GridSearchCV. SMOTE was applied to mitigate class imbalance and enhance model robustness for minority survival classes. Comparative performance analyses revealed Random Forest and XGBoost as top performers, achieving the highest recall …

Hybrid Agentic System For Schema-Aware Nl2sql Generation, David Omondi Onyango

All Graduate Theses, Dissertations, and Other Capstone Projects

The natural language to SQL (NL2SQL) task enables non-expert users to interact with relational databases via natural language interfaces. However, NL2SQL frameworks often rely on Large Language Models (LLMs), raising concerns about computational overhead, data privacy, and deployment in resource-limited environments. To address these issues, we propose a hybrid schema-aware agentic system using Small Language Models (SLMs) as primary agents, with a selective LLM fallback mechanism. The LLM activates only when errors are detected in SLM-generated queries, reducing inference costs. Experiments on the BIRD benchmark dataset show our system achieves an execution accuracy of 53.91% and validation efficiency score of …

A Study Of Three Modern Asian Lacquers Using Surface Metrology And Data Science/Analytics, H. David Sheets, Ravines Patrick, Marianne Webb

Computer and Data Science Faculty Publications

No abstract provided.

Elephant Presence Detection For Early-Warning In Kenya: A Cnn Transfer-Learning Approach, Pascaline Jerotich

All Graduate Theses, Dissertations, and Other Capstone Projects

In Kenya, conflicts between humans and elephants often lead to destruction of crops, lower family income, and put people and elephants at risk at the border of developing farms. Fences, patrols, and manual camera inspection are all expensive and take too long to be useful. This research creates an affordable early warning system that uses transfer learning with convolutional neural networks to find elephants in images. There are two label of elephant and non-elephant wildlife which are a public wildlife corpus of approximately 40,000 photographs of binary task. Cleaning of the dataset was done to ensure high quality and consistency. …

The Integration Of Big Data In Fintech: Review Of Enhancing Financial Services Through Advanced Technologies, Soudeh Pazouki, Mohammad B. Jamshidi, Mirarmia Jalali, Arya Tafreshi

Management Faculty Publications

Big data analytics is revolutionizing the FinTech industry, offering new opportunities for real-time decision-making, personalized financial services, and improved risk management. By leveraging advanced technologies like machine learning and artificial intelligence, financial institutions can efficiently detect fraud, predict market trends, and create innovative solutions tailored to customer needs. Big data also plays a critical role in promoting financial inclusion through alternative credit scoring models, providing access to credit for underserved populations and fostering broader participation in the financial system.

However, the integration of big data into FinTech is not without its challenges. Issues such as data privacy concerns, regulatory complexities, …

Random Graph Models For Dual Graphs, Anne Friedman

Scripps Senior Theses

This paper aims to better characterize dual graphs derived from state districting maps by developing random graph models that replicate their structural properties. Dual graphs provide a simplified way to represent districting maps, making it computationally feasible to analyze their structure. These representations enable researchers, legislators, and courts to assess district compactness, detect signs of gerrymandering, and generate alternative districting plans. A deeper understanding of the structural patterns of these dual graphs can help researchers choose or design more effective algorithms for redistricting analysis. The random graph models developed in this study serve as testbeds for evaluating algorithmic approaches to …

A Proof Of Np-Completeness For The K-Means Clustering Algorithm, Brooke C. Feinberg

Scripps Senior Theses

The k-means clustering algorithm is one of the most widely used clustering techniques in data analysis and machine learning, yet its exact computational complexity remains subject to ongoing theoretical investiga- tion. This work establishes the NP-completeness of k-means by proving (1) it is NP-hard and (2) it lies in NP. To demonstrate NP-hardness, we construct a series of polynomial-time reductions from well-known NP-complete problems. Specifically, we reduce 3sat to Vertex Cover, and then reduce Vertex Cover to k-means, thereby establishing the computational hardness of the k-means clustering problem. We then prove k-means is in NP, and thus conclude it is …

Analyzing Patterns In Chicago Motor Vehicle Crashes Using Time-Series Techniques, Christina Trotta

Senior Honors Theses and Projects

This project explores time series forecasting of daily traffic crash rates in Chicago from 2018 to 2024, with a focus on understanding how past crash patterns and external conditions influence future risk. The primary research question asks: To what extent does yesterday’s crash rate help predict today’s? Using a combination of Holt-Winters exponential smoothing, Prophet forecasting, and SARIMAX models, we assess the role of autoregression, seasonality, and exogenous variables such as weather and roadway conditions. Daily crash data was cleaned, aggregated, and enriched with engineered features including holiday indicators, weather metrics from O’Hare and Midway airports, and binary flags for …

Application Of Physics-Informed Neural Networks On Crop Yield Prediction At Multiple Scales, Aditya P. Prabhu, Pratishtha Poudel, James V. Krogmeier

Discovery Undergraduate Interdisciplinary Research Internship

Accurately predicting crop yields is a critical challenge in sustainable agriculture, food security, and farm management. Traditional process-based models rely on agronomic domain knowledge, crop physiology and statistical approaches, while purely data-driven approaches leverage machine learning or deep learning models using meteorological and spatial data. Unfortunately, these black-box models(Data-drive approaches) often lack interpretability and fail to incorporate well-established physical principles. This project explores a hybrid approach by implementing Physics Informed Neural Networks, mainly, physics-based recurrent neural networks (PI-RNNs) for time-series yield prediction. PINNs allow for the integration of scientific knowledge directly into the model by embedding physical laws as constraints …

Design And Implementation Of A Low-Cost Raspberry Pi And Ai-Based Intrusion Detection System For Surveillance, Metrine Nyaboke Osiemo

All Graduate Theses, Dissertations, and Other Capstone Projects

As security concerns continue to rise, there is a growing demand for affordable and intelligent surveillance solutions to ensure safety in homes, businesses, and other environments. Many individuals are embracing AI-driven technologies such as Closed-Circuit Television (CCTV), smart doorbells, and automated security systems to protect their properties. This project presents a design and implementation of a cost-effective AI-powered intrusion detection system utilizing Raspberry Pi 5 for home surveillance, with adaptability for broader applications. The system integrates a camera module and an LCD screen running on a Linux-based platform, with Python, and OpenCV as key software components. It employs dlib’s deep …

Credit Card Fraud Detection Via Model Retraining And Fine-Tuning, Anamol Khadka

Computer Science and Engineering Student Research - Archive

Credit card fraud detection is a critical task in financial systems, especially given the rarity and evolving nature of the fraudulent behavior. The highly imbalanced class levels of the fraudulent and non-fraudulent transactions make it a challenging classification problem to solve. This study investigates the effectiveness of machine learning models: Logistic Regression, XGBoost, and Multi-Layer Perceptron (Neural Network), evaluated under temporal retraining and fine-tuning scenarios using a publicly available, highly imbalanced dataset of European credit card transactions. The dataset includes 284,807 transactions, of which only 492 (0.172%) are labeled as fraudulent, making it a well-known example of an imbalanced classification …

Comparative Evaluation Of Traditional Machine Learning And Deep Cnn Models For Static Hand Gesture Recognition, Anamol Khadka, Prit Desai

Computer Science and Engineering Student Research - Archive

Hand gesture recognition plays a vital role in facilitating natural and intuitive human-computer interaction, with applications ranging from sign language translation to touchless control systems. This study presents a comparative evaluation of traditional machine learning models and a deep convolutional neural network (CNN) for static hand gesture classification. The experimental dataset comprises 24,000 training images and 6,000 testing images, spanning 20 gesture classes. Traditional models, including k-Nearest Neighbors (KNN) and Support Vector Machines (SVM), utilize handcrafted features such as convex hull, convexity defects, and Hu moments. In contrast, the deep learning approach fine-tunes a ResNet18 architecture to learn features directly …

Integrating Data Management Plans Into The Unified Architecture Framework Standards Views, Cansu Yalim, Holly A. H. Handley

Engineering Management & Systems Engineering Faculty Publications

System Architecting translates an operational concept into a model of the system to be realized. There is a need for a Data Management Plan (DMP) to be included in the overall system engineering process with the advent of Digital Engineering. Data longevity, accessibility, and integrity can all be improved throughout the system's lifecycle by a well-defined DMP. System engineers use an architecture framework to arrange the system data into several sets of viewpoints. Incorporating a DMP at this point specifies the procedures for gathering, storing, retrieving, and maintaining data to ensure that all interested parties have access to current, correct …

Deep Learning-Based Ensemble Two-Step Classification Of Medical Images Using Cnn Architectures And Ensemble Methods, Noreliz Alorico

Master's Theses or Doctor of Nursing Practice

Breast cancer remains one of the most common cancers amongst women globally. Early detection is crucial for improving survival rates. While mammography is widely used and an effective imaging technique, it can sometimes yield false positive or false negatives. Mammogram interpretation is highly operator-dependent, introducing variability and the potential for diagnostic errors. Additionally, mammographic images have limitations, such as low contrast in breast tissue and overlapping structures that can obscure lesions or mimic abnormalities. These limitations can lead to unnecessary biopsies or delayed diagnosis. These challenges highlight the needs for advanced and data driven diagnostic tools to support and enhance …

Improving The Completeness Of Food Composition Databases Using Predictive Analysis., Carla Arenhart

ICT

This study investigates the use of machine learning regression models to impute missing micronutrient values in Food Composition Databases (FCDBs), focusing on the FAO/INFOODS dataset. A cascading prediction methodology leverages nutrient interdependencies to systematically estimate missing values. Four models—Random Forest (RF), Support Vector Machine (SVM), Gradient Boosting Machines (GBM), and Deep Neural Networks (DNN)—were evaluated using MAE, MSE, RMSE, and R². RF and GBM achieved the highest predictive accuracy for protein, phosphorus, calcium, and magnesium, demonstrating that ML-based predictive analytics can provide a more reliable alternative to traditional imputation methods. These findings support improved dietary assessments, nutritional research, and data-driven …

Implementation Of Time Series And Neural Networks For Forecasting Agricultural Prices In The Irish Market: A Comparative Analysis Of Milk, Beef, And Potatoes., César Augusto Núñez

ICT

Agricultural price volatility represents a central challenge for the Irish agri-food sector, affecting the stability of producers, cooperatives, and policymakers. This study aimed to compare three predictive approaches applied to strategic commodities such as milk, beef, and potatoes: a traditional statistical time series model (SARIMA) and two deep learning architectures (RNN and LSTM). Using historical price series collected over a decade, the models were developed and evaluated following a rigorous methodological process that included data preparation, algorithm training, and validation of results using performance metrics widely used in time series research. The findings show that the SARIMA model was most …

Improving Fairness In Convolutional Neural Networks For Demographic Face Classification., Leandro Andrade

ICT

This study examines racial bias mitigation in Convolutional Neural Networks (CNNs) for demographic face classification using the FairFace dataset. Three architectures—ResNet50, VGG19, and InceptionV3—are evaluated, with dataset balancing strategies including undersampling and class weighting. Results indicate that InceptionV3 with class weighting achieves the most consistent performance across racial groups, with improved F1-scores and generalization through hyperparameter optimization and data augmentation. Challenges remain in distinguishing visually similar groups, highlighting the need for equitable datasets and fairness-aware training. These insights are critical for ensuring accuracy and fairness in applications such as law enforcement, healthcare, and human–computer interaction.