Data Science Commons^™

Breast Density Classification Using Deep Learning, Conrad Thomas Testagrose

UNF Graduate Theses and Dissertations

Breast density screenings are an accepted means to determine a patient's predisposed risk of breast cancer development. Although the direct correlation is not fully understood, breast cancer risk increases with higher levels of mammographic breast density. Radiologists visually assess a patient's breast density using mammogram images and assign a density score based on four breast density categories outlined by the Breast Imaging and Reporting Data Systems (BI-RADS). There have been efforts to develop automated tools that assist radiologists with increasing workloads and to help reduce the intra- and inter-rater variability between radiologists. In this thesis, I explored two deep-learning-based approaches …

Integrated Machine Learning And Optimization Approaches, Dogacan Yilmaz

Dissertations

This dissertation focuses on the integration of machine learning and optimization. Specifically, novel machine learning-based frameworks are proposed to help solve a broad range of well-known operations research problems to reduce the solution times. The first study presents a bidirectional Long Short-Term Memory framework to learn optimal solutions to sequential decision-making problems. Computational results show that the framework significantly reduces the solution time of benchmark capacitated lot-sizing problems without much loss in feasibility and optimality. Also, models trained using shorter planning horizons can successfully predict the optimal solution of the instances with longer planning horizons. For the hardest data set, …

Application Of Distributed Fiber-Optic Sensing For Pressure Predictions And Multiphase Flow Characterization, Gerald Kelechi Ekechukwu

LSU Doctoral Dissertations

In the oil and gas industry, distributed fiber optics sensing (DFOS) has the potential to revolutionize well and reservoir surveillance applications. Using fiber optic sensors is becoming increasingly common because of its chemically passive and non-magnetic interference properties, the possibility of flexible installations that could be behind the casing, on the tubing, or run on wireline, as well as the potential for densely distributed measurements along the entire length of the fiber. The main objectives of my research are to develop and demonstrate novel signal processing and machine learning computational techniques and workflows on DFOS data for a variety of …

Investigating Applications Of Deep Learning For Diagnosis Of Post Traumatic Elbow Disease, Hugh James

McKelvey School of Engineering Graduate Student Theses & Dissertations

Traumatic events such as dislocation, breaks, and arthritis of musculoskeletal joints can cause the development of post-traumatic joint contracture (PTJC). Clinically, noninvasive techniques such as Magnetic Resonance Imaging (MRI) scans are used to analyze the disease. Such procedures require a patient to sit sedentary for long periods of time and can be expensive as well. Additionally, years of practice and experience are required for clinicians to accurately recognize the diseased anterior capsule region and make an accurate diagnosis. Manual tracing of the anterior capsule is done to help with diagnosis but is subjective and timely. As a result, there is …

Transfer Of Personality Through Text Style, Michael O'Mahony, Robert Ross

Other resources

The style of generated text is how something is said rather than what is said. We hypothesize that changing the style of generated text can change the perceived personality of the text generation agent. Dialogue systems that aim to imitate a human agent can appear to have a consistent personality through a consistent, controllable style of conversation. Some recent work on the style of generated text [1] performs impressively in the small number of domains selected for their experiments using transformer and LSTM-based models. Lin et al. [1] used weak supervised learning as their data set lacks parallel data. The …

Artificial Intelligence In The Medical Field: Medical Review Sentiment Analysis, Nicholas Podlesak

Honors Capstones

In this research project, natural language processing techniques’ ability to accurately classify medical text was measured to reinforce the relevance of artificial intelligence in the medical field. Sentiment analyses (analyses to determine whether the text was positive or negative) were performed on the prescription drug reviews in an open-source dataset using four different models: lexical, a neural network, a support vector machine, and a logistic regression model. Each model’s effectiveness was gauged by its ability to correctly classify unlabeled drug reviews (i.e., a percentage representing accuracy). The machine learning models were able to accurately classify the text, while the lexical …

Identity Term Sampling For Measuring Gender Bias In Training Data, Nasim Sobhani, Sarah Jane Delany

Conference Papers

Predictions from machine learning models can reflect biases in the data on which they are trained. Gender bias has been identified in natural language processing systems such as those used for recruitment. The development of approaches to mitigate gender bias in training data typically need to be able to isolate the effect of gender on the output to see the impact of gender. While it is possible to isolate and identify gender for some types of training data, e.g. CVs in recruitment, for most textual corpora there is no obvious gender label. This paper proposes a general approach to measure …

A New Kind Of Data Science: The Need For Ethical Analytics, Jonathan Boardman

Published and Grey Literature from PhD Candidates

Ethics can no longer be regarded as an add-on in data science and analytics. This paper argues for the necessity of formalizing a new, practically-oriented sub-discipline of AI ethics by outlining the needs, highlighting shortcomings in current approaches, and providing a framework for ethical analytics, which is concerned with the study of the ethical issues surrounding the development, deployment, and/or dissemination of ML/AI systems and data science research, as well as the development of tools and procedures to mitigate ethical harms. While data science and machine learning are primarily concerned with data from start to finish, ethical analytics is concerned …

Ethical Analytics: A Framework For A Practically-Oriented Sub-Discipline Of Ai Ethics, Jonathan Boardman

Doctor of Data Science and Analytics Dissertations

Ethics can no longer be regarded as an add-on in data science and analytics. This dissertation argues for the necessity of formalizing a new, practically-oriented sub-discipline of AI Ethics by outlining needs, highlighting shortcomings in current approaches, and providing a framework for Ethical Analytics, a field concerned with the study of the ethical issues surrounding the development, deployment, and/or dissemination of ML/AI systems and data science research, as well as the development of tools and procedures to mitigate ethical harms. While data science and machine learning are primarily concerned with data from start to finish, ethical analytics is concerned primarily …

Molecular Pathways Enhance Drug Response Prediction Using Transfer Learning From Cell Lines To Tumors And Patient-Derived Xenografts, Yi-Ching Tang, Reid T Powell, Assaf Gottlieb

Faculty, Staff and Student Publications

Computational models have been successful in predicting drug sensitivity in cancer cell line data, creating an opportunity to guide precision medicine. However, translating these models to tumors remains challenging. We propose a new transfer learning workflow that transfers drug sensitivity predicting models from large-scale cancer cell lines to both tumors and patient derived xenografts based on molecular pathways derived from genomic features. We further compute feature importance to identify pathways most important to drug response prediction. We obtained good performance on tumors (AUROC = 0.77) and patient derived xenografts from triple negative breast cancers (RMSE = 0.11). Using feature importance, …

Classification Of Pixel Tracks To Improve Track Reconstruction From Proton-Proton Collisions, Kebur Fantahun, Jobin Joseph, Halle Purdom, Nibhrat Lohia

SMU Data Science Review

In this paper, machine learning techniques are used to reconstruct particle collision pathways. CERN (Conseil européen pour la recherche nucléaire) uses a massive underground particle collider, called the Large Hadron Collider or LHC, to produce particle collisions at extremely high speeds. There are several layers of detectors in the collider that track the pathways of particles as they collide. The data produced from collisions contains an extraneous amount of background noise, i.e., decays from known particle collisions produce fake signal. Particularly, in the first layer of the detector, the pixel tracker, there is an overwhelming amount of background noise that …

Mathematical Models Yield Insights Into Cnns: Applications In Natural Image Restoration And Population Genetics, Ryan Cecil

Electronic Theses and Dissertations

Due to a rise in computational power, machine learning (ML) methods have become the state-of-the-art in a variety of fields. Known to be black-box approaches, however, these methods are oftentimes not well understood. In this work, we utilize our understanding of model-based approaches to derive insights into Convolutional Neural Networks (CNNs). In the field of Natural Image Restoration, we focus on the image denoising problem. Recent work have demonstrated the potential of mathematically motivated CNN architectures that learn both `geometric' and nonlinear higher order features and corresponding regularizers. We extend this work by showing that not only can geometric features …

Perturbation Modeling For Molecular Design Of Protein Tyrosine Kinase Inhibitors Using Unsupervised Machine Learning, Keerthi Krishnan

Computational and Data Sciences (MS) Theses

The field of computational drug discovery and development has grown, with the aid of new computational tools for novel molecule discovery. In specific, generative deep learning models have excelled as tools to aid in navigating the large space of known molecules and in the creation of new molecules. These models are fed various representations of molecules as inputs and learn to perform a variety of things, such as the optimization of these molecules towards a targeted property. Ultimately, these generative learning models allow us to build bridges between chemical and continuous spaces to understand the compromise between invoking small incremental …

State-Based Biological Communication, Nathan Clement

All Theses

Allostery (1) is the process through which proteins self-regulate in response to various stimuli. Allosteric interactions occur between nonadjacent spatially distant residues (1), and they are exhibited through the correlated motions (2) and momenta of participating residues. The location of allosteric sites in proteins can be determined experimentally but computational methods to predict the location of allosteric sites are being developed as well (2-4, 10). Experimental and computational methodologies for locating allosteric sites can be used to design specific targeted drug delivery (5-6, 19), but these methods have not yet …

Predicting Order Status Using Xgboost, Kegan J. Penovich

All Graduate Plan B and other Reports, Spring 1920 to Spring 2023

Invista, a Koch subsidiary, is a multinational producer of fibers, resins, and intermediaries, particularly nylon. To keep the company operating required them to take over 1.5 million orders over the course of - years, less than a third of which arrived on-time. Orders arriving other than when expected can cause many problems for any company. While arriving late is a clear problem, it also troublesome for them to arrive early. In the face of this, it becomes important to be able to tell a-priori if an order will arrive on-time or not.

To address this problem, we made use of …

Deep Learning For Detecting Trees In The Urban Environment From Lidar, Julian R. Rice

Master's Theses

Cataloguing and classifying trees in the urban environment is a crucial step in urban and environmental planning. However, manual collection and maintenance of this data is expensive and time-consuming. Algorithmic approaches that rely on remote sensing data have been developed for tree detection in forests, though they generally struggle in the more varied urban environment. This work proposes a novel method for the detection of trees in the urban environment that applies deep learning to remote sensing data. Specifically, we train a PointNet-based neural network to predict tree locations directly from LIDAR data augmented with multi-spectral imaging. We compare this …

Computational Models To Detect Radiation In Urban Environments: An Application Of Signal Processing Techniques And Neural Networks To Radiation Data Analysis, Jose Nicolas Gachancipa

Beyond: Undergraduate Research Journal

Radioactive sources, such as uranium-235, are nuclides that emit ionizing radiation, and which can be used to build nuclear weapons. In public areas, the presence of a radioactive nuclide can present a risk to the population, and therefore, it is imperative that threats are identified by radiological search and response teams in a timely and effective manner. In urban environments, such as densely populated cities, radioactive sources may be more difficult to detect, since background radiation produced by surrounding objects and structures (e.g., buildings, cars) can hinder the effective detection of unnatural radioactive material. This article presents a computational model …

Toward A Standard Formal Semantic Representation Of The Model Card Report, Muhammad Tuan Amith, Licong Cui, Degui Zhi, Kirk Roberts, Xiaoqian Jiang, Fang Li, Evan Yu, Cui Tao

Faculty, Staff and Student Publications

BACKGROUND: Model card reports aim to provide informative and transparent description of machine learning models to stakeholders. This report document is of interest to the National Institutes of Health's Bridge2AI initiative to address the FAIR challenges with artificial intelligence-based machine learning models for biomedical research. We present our early undertaking in developing an ontology for capturing the conceptual-level information embedded in model card reports.

RESULTS: Sourcing from existing ontologies and developing the core framework, we generated the Model Card Report Ontology. Our development efforts yielded an OWL2-based artifact that represents and formalizes model card report information. The current release of …

Toward A Standard Formal Semantic Representation Of The Model Card Report, Muhammad Tuan Amith, Licong Cui, Degui Zhi, Kirk Roberts, Xiaoqian Jiang, Fang Li, Evan Yu, Cui Tao

Faculty, Staff and Student Publications

BACKGROUND: Model card reports aim to provide informative and transparent description of machine learning models to stakeholders. This report document is of interest to the National Institutes of Health's Bridge2AI initiative to address the FAIR challenges with artificial intelligence-based machine learning models for biomedical research. We present our early undertaking in developing an ontology for capturing the conceptual-level information embedded in model card reports.

RESULTS: Sourcing from existing ontologies and developing the core framework, we generated the Model Card Report Ontology. Our development efforts yielded an OWL2-based artifact that represents and formalizes model card report information. The current release of …

A Comparison Of Machine Learning Models To Prioritise Emailsusing Emotion Analysis For Customer Service Excellence, Mohammad Yasser Chuttur, Yashinee Parianen

Knowledge Engineering and Data Science

There has been little research on machine learning for email prioritization for customer service excellence. To fill this gap, we propose and assess the efficacy of various machine learning techniques for classifying emails into three degrees of priority: high, low, and neutral, based on the emotions inherent in the email content. It is predicted that after emails are classified into those three categories, recipients will be able to respond to emails more efficiently and provide better customer service. We use the NRC Emotion Lexicon to construct a labeled email dataset of 517,401 messages for our proposal. Following that, we train …

Automatic Contact Tracing Using Bluetooth Low Energy Signals And Imu Sensor Readings, Suriyadeepan Ramamoorthy, Joyce Mahon, Michael O'Mahony, Jean Francois Itangayenda, Tendai Mukande, Tlamelo Makati

Other resources

In this report, we present our solution to the challenge provided by the SFI Centre for Machine Learning (ML-Labs) in which the distance between two phones needs to be estimated. It is a modified version of the NIST Too Close For Too Long (TC4TL) Challenge, as the time aspect is excluded. We propose a feature-based approach based on Bluetooth RSSI and IMU sensory data, that outperforms the previous state of the art by a significant margin, reducing the error down to 0.071. We perform an ablation study of our model that reveals interesting insights about the relationship between the distance …

A Machine Learning Approach To Revenue Generation Within The Professional Hair Care Industry, Alexander K. Sepenu, Linda Eliasen

SMU Data Science Review

The cosmetic and beauty industry continues to grow and evolve to satisfy its patrons. In the United States, the industry is heavily science-driven, innovative, and fast-paced, suggesting that to remain productive and profitable, companies must seek smart alternatives to their current modus operandi or risk losing out on this multi-billion-dollar industry to fierce competition. In this paper, the authors seek to utilize machine learning models such as clustering and regression to improve the efficiency of current sales and customer segmentation models to help HairCo (pseudonym for confidentiality), a professional hair products manufacturer, strategize their marketing and sales efforts for revenue …

Analysis Of The Electric Power Outage Data And Prediction Of Electric Power Outage For Major Metropolitan Areas In Texas Using Machine Learning And Time Series Methods, Renfeng Wang, Venkata Leela 'Mg' Vanga, Zachary B. Zaiken, Jonathan Bennett

SMU Data Science Review

With growing energy usage, power outages affect millions of households. This case study focuses on gathering power outage historical data, modifying the data to attach weather attributes, and gathering ERCOT energy market conditions for Dallas-Fort Worth and Houston metropolitan areas of Texas. The transformed data is then analyzed using machine learning algorithms including, but not limited to, Regression, Random Forests and XGBoost to consider current weather and ERCOT features and predict power outage percentage for locations. The transformed data is also trained using time series models and serially correlated models including Autoregression and Vector Autoregression. This study also focuses on …

Machine Learning And The Network Analysis Of Ethereum Trading Data, Santosh Sivakumar

Dartmouth College Undergraduate Theses

Since their conception, cryptocurrencies have captured the public interest, motivating a growing body of research aimed at exploring blockchain-based transactions. This said, little work has been done to draw conclusions from transaction patterns, particularly in the realm of predicting cryptocurrency price movements. Moreover, research in the cryptocurrency sphere largely focuses on Bitcoin, paying little attention to Ethereum, Bitcoin's second-in-line with respect to market capitalization. In this paper, we construct hourly networks for a year of Ethereum transactions, using computed graph metrics as features in a series of machine learning models. We find that regression-based approaches to predicting Ether prices/price deltas …

Legislative Language For Success, Sanjana Gundala

Master's Theses

Legislative committee meetings are an integral part of the lawmaking process for local and state bills. The testimony presented during these meetings is a large factor in the outcome of the proposed bill. This research uses Natural Language Processing and Machine Learning techniques to analyze testimonies from California Legislative committee meetings from 2015-2016 in order to identify what aspects of a testimony makes it successful. A testimony is considered successful if the alignment of the testimony matches the bill outcome (alignment is "For" and the bill passes or alignment is "Against" and the bill fails). The process of finding what …

External Validation Of A Laboratory Prediction Algorithm For The Reduction Of Unnecessary Labs In The Critical Care Setting, Linda T Li, Tongtong Huang, Elmer V Bernstam, Xiaoqian Jiang

Faculty, Staff and Student Publications

BACKGROUND: Unnecessary laboratory tests contribute to iatrogenic harm and are a major source of waste in the health care system. We previously developed a machine learning algorithm to help clinicians identify unnecessary laboratory tests, but it has not been externally validated. In this study, we externally validate our machine learning algorithm.

METHODS: To externally validate the machine learning algorithm that was originally trained on the Medical Information Mart for Intensive Care (MIMIC) III database, we tested the algorithm in a separate institution. We identified and abstracted data for all patients older than 18 years admitted to the intensive care unit …

Relational Graph Convolutional Networks For Predicting Blood-Brain Barrier Penetration Of Drug Molecules, Yan Ding, Xiaoqian Jiang, Yejin Kim

Faculty, Staff and Student Publications

MOTIVATION: Evaluating the blood-brain barrier (BBB) permeability of drug molecules is a critical step in brain drug development. Traditional methods for the evaluation require complicated in vitro or in vivo testing. Alternatively, in silico predictions based on machine learning have proved to be a cost-efficient way to complement the in vitro and in vivo methods. However, the performance of the established models has been limited by their incapability of dealing with the interactions between drugs and proteins, which play an important role in the mechanism behind the BBB penetrating behaviors. To address this limitation, we employed the relational graph convolutional …

Building An Artificial Intelligence Framework For Hypertension Diagnosis: A Use Case Of The Problem List Curation, Ketemwabi Yves Shamavu

Theses & Dissertations

Hypertension is the world's leading factor in cardiovascular disease. Forty-seven percent or close to one in two Americans aged 18 and older are affected. It predicts approximately a thousand deaths per day. Based on recent statistics from the Centers for Disease Control and Prevention, one in three patients with hypertension does not know they are hypertensive. Seventy-five percent of hypertensive patients have uncontrolled hypertension - meaning that they are not treated to target. While there is extensive literature on hypertension diagnosis and management, there is an apparent gap in understanding and acknowledging that a person is hypertensive. Moreover, blood pressure …

Attempting To Predict The Unpredictable: March Madness, Coleton Kanzmeier

Theses/Capstones/Creative Projects

Each year, millions upon millions of individuals fill out at least one if not hundreds of March Madness brackets. People test their luck every year, whether for fun, with friends or family, or to even win some money. Some people rely on their basketball knowledge whereas others know it is called March Madness for a reason and take a shot in the dark. Others have even tried using statistics to give them an edge. I intend to follow a similar approach, using statistics to my advantage. The end goal is to predict this year’s, 2022, March Madness bracket. To achieve …

Quadratic Neural Network Architecture As Evaluated Relative To Conventional Neural Network Architecture, Reid Taylor

Senior Theses

Current work in the field of deep learning and neural networks revolves around several variations of the same mathematical model for associative learning. These variations, while significant and exceptionally applicable in the real world, fail to push the limits of modern computational prowess. This research does just that: by leveraging high order tensors in place of 2nd order tensors, quadratic neural networks can be developed and can allow for substantially more complex machine learning models which allow for self-interactions of collected and analyzed data. This research shows the theorization and development of mathematical model necessary for such an idea to …