Language Models For Rare Disease Information Extraction: Empirical Insights And Model Comparisons, Shashank Gupta

Theses and Dissertations--Computer Science

End-to-end relation extraction (E2ERE) is a crucial task in natural language processing (NLP) that involves identifying and classifying semantic relationships between entities in text. This thesis compares three paradigms for end-to-end relation extraction (E2ERE) in biomedicine, focusing on rare diseases with discontinuous and nested entities. We evaluate Named Entity Recognition (NER) to Relation Extraction (RE) pipelines, sequence-to-sequence models, and generative pre-trained transformer (GPT) models using the RareDis information extraction dataset. Our findings indicate that pipeline models are the most effective, followed closely by sequence-to-sequence models. GPT models, despite having eight times as many parameters, perform worse than sequence-to-sequence models and …

Investigation Of Space Charge Effects On Co2 Electrocatalytic Reduction On Gd-Doped Ceria Via Scanning Kelvin Probe And Model-Based Bayesian Analysis, Alejandro Mejia

Graduate Theses, Dissertations, and Problem Reports (ETD)

In studying novel energy conversion and storage systems, such as high-temperature electrolysis, numerous underlying fundamental physical processes remain unclear or inadequately understood. Among these, the modeling and comprehension of surface reaction mechanisms, coupled with the intricate effects of space‑charge interfaces, remains an unclear and challenging area of research.

The work of this dissertation involves the development of a 2D finite element analysis model, leveraging the robust MOOSE framework from INL. This model, featuring inhomogeneous defect thermodynamics for near-surface chemistry, formulated through Poisson‑Cahn variational theory, has been exploited for studying the electrocatalytic reduction of CO₂ on gadolinia doped ceria. The …

How Can A Cloud Computing It Framework Be Created And Applied Effectively In The Online Printing Industry?, Stefan Meissner

Dissertations

This research aims to design a cloud computing IT framework for the online printing industry based on a detailed literature review, the development of proof of concepts (PoC), and the conduction of a focus group. The framework can be adopted by the online printing industry or by vendors of print-specific applications to optimize their products for the online printing industry. The author has been working in the online printing process optimization and automation since 2007. During this time, he got deep insight into many industry-specific applications, their architectural design, and their challenges being used in the context of online printing. …

Development Of Probabilistic Dynamic Model Building And Bayesian Machine Learning Approaches, Samuel Oladayo Adeyemo

Graduate Theses, Dissertations, and Problem Reports (ETD)

Abstract

Development of Probabilistic Dynamic Model Building and Bayesian Machine Learning Approaches

Samuel Adeyemo

The recent years have seen a tremendous increase in the use of artificial intelligence (AI) and machine learning (ML) for the development of data-driven mathematical models needed for performing real-time optimization, model-based control, performance optimization, dynamic data reconciliation, and process performance monitoring. However, the development of data-driven models is faced with some challenges including lack of model interpretability, sensitivity of algorithm to noise in training data, limited extrapolation capabilities and violation of conservation laws. Drawing motivation from these existing gaps, this work aims to develop robust …

Methods That Support The Validation Of Agent-Based Models: An Overview And Discussion, Andrew Collins, Matthew Koehler, Christopher Lynch

Engineering Management & Systems Engineering Faculty Publications

Validation is the process of determining if a model adequately represents the system under study for the model’s intended purpose. Validation is a critical component in building the credibility of a simulation model with its end-users. Effectively conducting validation can be a daunting task for both novice and experienced simulation developers. Further compounding the difficult task of conducting validation is that there is no universally accepted approach for assessing a simulation. These challenges are particularly relevant to the paradigm of Agent-Based Modeling and Simulation (ABMS) because of the complexity found in these models’ mechanisms and in the real-world situations they …

Teaching Analytics Online: A Self-Study Of Professional Practice, Andrew J. Collins, Brandon Butler, James F. Leathrum Jr., Christopher J. Lynch

Engineering Management & Systems Engineering Faculty Publications

As the COVID-19 pandemic caused severe disruption to education enterprises throughout the world, the main response by educational institutions was to move to online learning environments. The purpose of this study was to understand better how instructors could improve online learning for a professional-level week-long short course in a highly technical area (data analytics), which had, pre-COVID, been a hands-on computer, laboratory-based learning experience. The authors used self-study of professional practice to elicit and understand the major issues and concerns of the transition to an online learning environment. Under the guidance of a colleague in teacher education, three course instructors …

Modernizing And Harmonizing Regulatory Data Requirements For Genetically Modified Crops-Perspectives From A Workshop, Nicholas P Storer, Abigail R Simmons, Jordan Sottosanto, Jennifer A Anderson, Ming Hua Huang, Debbie Mahadeo, Carey A Mathesius, Mitscheli Sanches Da Rocha, Shuang Song, Ewa Urbanczyk-Wochniak

Faculty, Staff and Student Publications

Genetically modified (GM) crops that have been engineered to express transgenes have been in commercial use since 1995 and are annually grown on 200 million hectares globally. These crops have provided documented benefits to food security, rural economies, and the environment, with no substantiated case of food, feed, or environmental harm attributable to cultivation or consumption. Despite this extensive history of advantages and safety, the level of regulatory scrutiny has continually increased, placing undue burdens on regulators, developers, and society, while reinforcing consumer distrust of the technology. CropLife International held a workshop at the 16th International Society of Biosafety Research …

Data Driven And Machine Learning Based Modeling And Predictive Control Of Combustion At Reactivity Controlled Compression Ignition Engines, Behrouz Khoshbakht Irdmousa

Dissertations, Master's Theses and Master's Reports

Reactivity Controlled Compression Ignition (RCCI) engines operates has capacity to provide higher thermal efficiency, lower particular matter (PM), and lower oxides of nitrogen (NOx) emissions compared to conventional diesel combustion (CDC) operation. Achieving these benefits is difficult since real-time optimal control of RCCI engines is challenging during transient operation. To overcome these challenges, data-driven machine learning based control-oriented models are developed in this study. These models are developed based on Linear Parameter-Varying (LPV) modeling approach and input-output based Kernelized Canonical Correlation Analysis (KCCA) approach. The developed dynamic models are used to predict combustion timing (CA50), indicated mean effective pressure (IMEP), …

Federated Learning: Overview, Strategies, Applications, Tools And Future Directions, Betul Yurdem, Murat Kuzlu, Mehmet Kemal Gullu, Maliha Tabassum

Engineering Technology Faculty Publications

Federated learning (FL) is a distributed machine learning process, which allows multiple nodes to work together to train a shared model without exchanging raw data. It offers several key advantages, such as data privacy, security, efficiency, and scalability, by keeping data local and only exchanging model updates through the communication network. This review paper provides a comprehensive overview of federated learning, including its principles, strategies, applications, and tools along with opportunities, challenges, and future research directions. The findings of this paper emphasize that federated learning strategies can significantly help overcome privacy and confidentiality concerns, particularly for high-risk applications.

Towards Algorithmic Justice: Human Centered Approaches To Artificial Intelligence Design To Support Fairness And Mitigate Bias In The Financial Services Sector, Jihyun Kim

CMC Senior Theses

Artificial Intelligence (AI) has positively transformed the Financial services sector but also introduced AI biases against protected groups, amplifying existing prejudices against marginalized communities. The financial decisions made by biased algorithms could cause life-changing ramifications in applications such as lending and credit scoring. Human Centered AI (HCAI) is an emerging concept where AI systems seek to augment, not replace human abilities while preserving human control to ensure transparency, equity and privacy. The evolving field of HCAI shares a common ground with and can be enhanced by the Human Centered Design principles in that they both put humans, the user, at …

Sparse Representation Learning For Temporal Networks, Maxwell Mcneil

Electronic Theses & Dissertations (2024 - present)

Temporal networks arise in many domains including activity of social network users, sensor network readings over time, and time course gene expression within the interaction network of a model organism. Data of this type contains a wealth of prior information such as the connectivity among nodes (e.g., a friendship graph), and prior knowledge of expected temporal patterns (e.g., periodicity). Modeling these temporal and network patterns jointly is essential for state-of-the-art performance in temporal network data analysis and mining. Sparse dictionary encoding is one modeling approach for such underlying patterns. However, most classical approaches consider only one dimension of the data …

Leveraging Redundancy As A Link Between Spreading Dynamics On And Of Networks, Felipe Xavier Costa

Electronic Theses & Dissertations (2024 - present)

A constant quest in network science has been in the development of methods to identify the most relevant components in a dynamical system solely via the interaction structure amongst its subsystems. This information allows the development of control and intervention strategies in biochemical signaling and epidemic spreading. We highlight the relevant components in heterogeneous dynamical system by their patterns of redundancy, which can connect how dynamics affect network topology and which pathways are necessary to spreading phenomena on networks. In order to measure the redundancies in a large class of empirical systems, we develop the backbone of directed networks methodology, …

Molecular Understanding And Design Of Deep Eutectic Solvents And Proteins Using Computer Simulations And Machine Learning, Usman Lame Abbas

Theses and Dissertations--Chemical and Materials Engineering

Hydrophobic deep eutectic solvents (DESs) have emerged as excellent extractants. A major challenge is the lack of an efficient tool to discover DES candidates. Currently, the search relies heavily on the researchers’ intuition or a trial-and-error process, which leads to a low success rate or bypassing of promising candidates. DES performance depends on the heterogeneous hydrogen bond environment formed by multiple hydrogen bond donors and acceptors. Understanding this heterogeneous hydrogen bond environment can help develop principles for designing high performance DESs for extraction and other separation applications. This work investigates the structure and dynamics of hydrogen bonds in hydrophobic DESs …

Data-Driven Modeling Of Oxygen Kinetics In La0.6sr0.4co0.2fe0.8o3−Δ (Lscf) For High-Temperature Reduction Of Co2 In An Electrolysis Cell, Ferron Campbell

Graduate Theses, Dissertations, and Problem Reports (ETD)

Electrolysis systems are critical to several societal applications, particularly energy storage and conversion. Developing these systems requires a detailed knowledge of the chemistry and thermodynamics of the materials used in the electrolysis cell. This work focuses on using embedded scientific machine learning as an efficient way to build an interpretable model for the reaction and transport kinetics in the LSCF electrode, whose performance directly influences the electrolysis system’s performance. The models developed in this study are trained using the publicly available machine learning package, FoKL-GP. This package incorporates a robust Gibbs sampler that employs a forward variable selection process to …

Simulation Of Wave Propagation In Granular Particles Using A Discrete Element Model, Syed Tahmid Hussan

College of Graduate Studies: Theses & Dissertations

The understanding of Bender Element mechanism and utilization of Particle Flow Code (PFC) to simulate the seismic wave behavior is important to test the dynamic behavior of soil particles. Both discrete and finite element methods can be used to simulate wave behavior. However, Discrete Element Method (DEM) is mostly suitable, as the micro scaled soil particle cannot be fully considered as continuous specimen like a piece of rod or aluminum. Recently DEM has been widely used to study mechanical properties of soils at particle level considering the particles as balls. This study represents a comparative analysis of Voigt and Best …

Mhair: A Dataset Of Audio-Image Representations For Multimodal Human Actions, Muhammad Bilal Shaikh, Douglas Chai, Syed M. S. Islam, Naveed Akhtar

Research outputs 2022 to 2026

Audio-image representations for a multimodal human action (MHAiR) dataset contains six different image representations of the audio signals that capture the temporal dynamics of the actions in a very compact and informative way. The dataset was extracted from the audio recordings which were captured from an existing video dataset, i.e., UCF101. Each data sample captured a duration of approximately 10 s long, and the overall dataset was split into 4893 training samples and 1944 testing samples. The resulting feature sequences were then converted into images, which can be used for human action recognition and other related tasks. These images can …

Transformer-Enabled Deep Reinforcement Learning For Coverage Path Planning, Daniel B. Tiu

UNF Graduate Theses and Dissertations

Coverage path planning (CPP) is the problem of covering all points in an environment and is a well-researched topic in robotics due to its sheer practical relevance. This paper investigates such an offline CPP problem where the primary objective is to minimize the path length to achieve complete coverage. Furthermore, the literature suggests that taking turns leads to a higher energy use than going straight. To this end, we design a novel objective function that aims to minimize the number of turns as well. We have proposed a deep reinforcement learning (DRL)-based framework that uses a Transformer model. Unlike state-of-the-art …

An Enhanced Deep Autoencoder For Flight Delay Prediction, Desmond B. Bisandu, Dan Andrei Soviani-Sitoiu, Irene Moulitsas

Journal of Aviation/Aerospace Education & Research

Accurate and timely flight delay prediction cannot be overemphasized because of the ever-increasing demand for air travel and its importance in deploying intelligent transportation systems. Nonetheless, there has not been a universal solution to the problem, as more intelligent flight decision systems are required for the aviation industry's future growth. Existing flight delay classification and prediction approaches are mainly shallow traffic models and do not satisfy many applications in the real world. Our motivation to rethink the deep architecture model for predicting flight delays emanates from the problem. In this research, we proposed a technique that modified stacked autoencoder architecture …

A Review Of Emerging Sensor Technologies For Tank Inspection: A Focus On Lidar And Hyperspectral Imaging And Their Automation And Deployment, Sergio Pallas Enguita, Chung-Hao Chen, Samuel Kovacic

Electrical & Computer Engineering Faculty Publications

This paper reviews various sensor technologies for tank inspection, focusing on Light Detection and Ranging (LiDAR) and Hyperspectral Imaging (HSI) as advanced solutions for corrosion detection. These technologies are evaluated alongside traditional methods such as ultrasonic, electromagnetic, and thermographic inspections. This review highlights their potential to enhance inspection accuracy, reduce the limitations of manual inspection, and support integrated data analysis for comprehensive asset management. Additionally, this paper proposes a pathway for automating these techniques to streamline inspection processes and improve implementation in practical applications.

Runtime Performance Of Gamess Quantum Chemistry Application Offloaded To Gpus, Masha Sosonkina, Gabriel Mateescu, Peng Xu, Tosaporn Sattasathuchana, Buu Pham, Mark S. Gordon, Sarom S. Leang

Electrical & Computer Engineering Faculty Publications

Computational chemistry is at the forefront of solving urgent societal problems, such as polymer upcycling and carbon capture. The complexity of modeling these processes at appropriate length and time scales is mainly manifested in the number and types of chemical species involved in the reactions and may require models of several thousand atoms and large basis sets to accurately capture the chemical complexity and heterogeneity in the physical and chemical processes. The quantum chemistry package General Atomic and Molecular Electronic Structure System (GAMESS) has a wide array of methods that can efficiently and accurately treat complex chemical systems. In this …

Reducing Food Scarcity: The Benefits Of Urban Farming, S.A. Claudell, Emilio Mejia

Journal of Nonprofit Innovation

Urban farming can enhance the lives of communities and help reduce food scarcity. This paper presents a conceptual prototype of an efficient urban farming community that can be scaled for a single apartment building or an entire community across all global geoeconomics regions, including densely populated cities and rural, developing towns and communities. When deployed in coordination with smart crop choices, local farm support, and efficient transportation then the result isn’t just sustainability, but also increasing fresh produce accessibility, optimizing nutritional value, eliminating the use of ‘forever chemicals’, reducing transportation costs, and fostering global environmental benefits.

Imagine Doris, who is …

An Investigation Into Applications Of Canonical Polyadic Decomposition & Ensemble Learning In Forecasting Thermal Data Streams In Direct Laser Deposition Processes, Jonathan Storey

Theses and Dissertations

Additive manufacturing (AM) is a process of creating objects from 3D model data by adding layers of material. AM technologies present several advantages compared to traditional manufacturing technologies, such as producing less material waste and being capable of producing parts with greater geometric complexity. However, deficiencies in the printing process due to high process uncertainty can affect the microstructural properties of a fabricated part leading to defects. In metal AM, previous studies have linked defects in parts with melt pool temperature fluctuations, with the size of the melt pool and the scan pattern being key factors associated with part defects. …

Climate Change Impact On Bridge Scour Risk In Ny State: A Gis-Based Risk Analysis Model, Muhammad Hassan Butt

Publications and Research

Bridge scour, the primary cause of bridge failure in the United States, escalates post-severe storms, necessitating effective mitigation. This study employs a GIS-based risk analysis model to assess climate change's impact on bridge scour and associated risks in New York State. Data from the National Bridge Inventory, climate hazard maps, and geospatial data are integrated.

Systematic Literature Review On Ontology-Based Indonesian Question Answering System, Fadhila Tangguh Admojo, Adidah Lajis, Haidawati Nasir

Knowledge Engineering and Data Science

Question-Answering (QA) systems at the intersection of natural language processing, information retrieval, and knowledge representation aim to provide efficient responses to natural language queries. These systems have seen extensive development in English and languages like Indonesian present unique challenges and opportunities. This literature review paper delves into the state of ontology-based Indonesian QA systems, highlighting critical challenges. The first challenge lies in sentence understanding, variations, and complexity. Most systems rely on syntactic analysis and struggle to grasp sentence semantics. Complex sentences, especially in Indonesian, pose difficulties in parsing, semantic interpretation, and knowledge extraction. Addressing these linguistic intricacies is pivotal for …

Eeg Classification While Listening To Murottal Al-Quran And Classical Music Using Random Forest Method, Heni Sumarti, Fahira Septiani, Agus Sudarmanto, Wahyu Caesarendra, Rizki Edmi Edison

Knowledge Engineering and Data Science

This study is aimed to classify the brain activity of adolescents associated with audio stimuli; murottal Al-Quran and classical music. The raw data were filtered using Independent Component Analisys (ICA) and followed by band-pass filter in Python on the Google Colab Extraction was processed with Power Spectral Density (PSD) and the Random Forest Method in Weka Machine Learning was used for classification. The research results showed the same results between the two types of stimulation, namely the order of brain waves from highest to lowest were delta, alpha, theta and beta. The average brain waves of teenagers when given murottal …

Deep Learning Approaches With Optimum Alpha For Energy Usage Forecasting, Aji Prasetya Wibawa, Agung Bella Putra Utama, Ade Kurnia Ganesh Akbari, Akhmad Fanny Fadhilla, Alfiansyah Putra Pertama Triono, Andien Khansa’A Iffat Paramarta, Faradini Usha Setyaputri, Leonel Hernandez

Knowledge Engineering and Data Science

Energy use is an essential aspect of many human activities, from individual to industrial scale. However, increasing global energy demand and the challenges posed by environmental change make understanding energy use patterns crucial. Accurate predictions of future energy consumption can greatly influence decision-making, supply-demand stability and energy efficiency. Energy use data often exhibits time-series patterns, which creates complexity in forecasting. To address this complexity, this research utilizes Deep Learning (DL), Convolutional Neural Networks (CNN), Recurrent Neural Networks (RNN), Long Short-term Memory (LSTM), Bidirectional LSTM (Bi-LSTM), and Gated Recurrent Unit (GRU) models. The main objective is to improve the accuracy of …

The Effect Of The Number Of Hidden Layers On The Performance Of Deep Q-Network For Traveling Salesman Problem, Benzfica Hanif, Aisyah Larasati, Rudi Nurdiansyah, Trung Le

Knowledge Engineering and Data Science

The Traveling Salesman Problem (TSP) effectively represents the complex distribution issues encountered by couriers, who must carefully plan a route that includes all customer addresses while minimizing the distance traveled. As the magnitude of deliveries and the range of destinations expand, the courier's responsibility becomes progressively challenging. In this particular context, the objective of our research is to expand the existing knowledge and explore the complete capabilities of Deep Q-Network (DQN) models in order to achieve the most efficient route determination. This endeavor can potentially bring about significant changes in the courier and delivery service sector. The foundation of our …

Stacked Lstm-Gru Long-Term Forecasting Model For Indonesian Islamic Banks, Yayat Sujatna, Adhitio Satyo Bayangkari Karno, Widi Hastomo, Nia Yuningsih, Dody Arif, Sri Setya Handayani, Aqwam Rosadi Kardian, Ire Puspa Wardhani, L.M Rasdi Rere

Knowledge Engineering and Data Science

The development of the Islamic banking industry in Indonesia has become a significant concern in recent years, with rapid growth in the number of banks operating based on Sharia principles. To face emerging challenges and opportunities, a deep understanding of the long-term financial behavior of Islamic banks is becoming increasingly important. This study aims to predict the share price of PT Bank Syariah Indonesia Tbk, over 28 days using the LSTM-GRU stack. The observation stage includes importing the dataset, data separation, model variations, the training process, output, and evaluation. Observations were conducted using 10 model variations from 4 stacks of …

Comparison Of Machine Learning Algorithms For Species Family Classification Using Dna Barcode, Lala Septem Riza, M Ammar Fadhlur Rahman, Yudi Prasetyo, Muhammad Iqbal Zain, Herbert Siregar, Topik Hidayat, Khyrina Airin Fariza Abu Samah, Miftahurrahma Rosyda

Knowledge Engineering and Data Science

Classifying plant species within the Liliaceae and Amaryllidaceae families presents inherent challenges due to the complex genetic diversity and overlapping morphological traits among species. This study explores the difficulties in accurate classification by comparing 11 supervised learning algorithms applied to DNA barcode data, aiming to enhance the precision of species family classification in these taxonomically intricate plant families. The ribulose-1,5-bisphosphate carboxylase-oxygenase large sub-unit (rbcL) gene, selected as a DNA barcode locus for plants, is used to represent species within the Amaryllidaceae and Liliaceae families. The experimental results demonstrate that nearly all tested models achieve accurate species classification into the appropriate …

Motion Simulation And Risk Assessment Of Dropped Objects In Offshore Operations, Hanqi Yu

LSU New Orleans Theses and Dissertations

Subsea pipelines are a cost-effective and reliable way to transport hydrocarbons in offshore oil and gas development. However, dropped objects can pose hazards and cause damage to pipelines. This dissertation briefly introduces the hazards and hidden dangers caused by dropped containers, discusses motion simulation methods for different object shapes, and reviews risk assessment procedures for handling dropped objects in offshore operations. Ongoing research at the University of New Orleans' towing tank on dropped container models is also discussed. Using ANSYS Fluent, we simulate trajectories of container models and calculate relevant hydrodynamic coefficients for different dropped angles. We then apply risk …