Digital Commons Network^™

Advancing Molecular Simulations Of Crystal Nucleation: Applications To Clathrate Hydrates, Ryan Scott Defever

All Dissertations

Crystallization is a fundamental physical phenomenon with broad impacts in science and engineering. Nonetheless, mechanisms of crystallization in many systems remain incompletely understood. Molecular dynamics (MD) simulations are a powerful computational technique that, in principle, are well-suited to offer insights into the mechanisms of crystallization. Unfortunately, the waiting time required to observe crystal nucleation in simulated systems often falls far beyond the limits of modern MD simulations. This rare-event problem is the primary barrier to simulation studies of crystallization in complex systems. This dissertation takes a combined approach to advance simulation studies of nucleation in complex systems. First, we apply …

Improving Optimization Of Convolutional Neural Networks Through Parameter Fine-Tuning, Nicholas C. Becherer, John M. Pecarina, Scott L. Nykl, Kenneth M. Hopkinson

Faculty Publications

In recent years, convolutional neural networks have achieved state-of-the-art performance in a number of computer vision problems such as image classification. Prior research has shown that a transfer learning technique known as parameter fine-tuning wherein a network is pre-trained on a different dataset can boost the performance of these networks. However, the topic of identifying the best source dataset and learning strategy for a given target domain is largely unexplored. Thus, this research presents and evaluates various transfer learning methods for fine-grained image classification as well as the effect on ensemble networks. The results clearly demonstrate the effectiveness of parameter …

How Does Machine Learning Change Software Development Practices?, Zhiyuan Wan, Xin Xia, David Lo, Gail C. Murphy

Research Collection School Of Computing and Information Systems

Adding an ability for a system to learn inherently adds uncertainty into the system. Given the rising popularity of incorporating machine learning into systems, we wondered how the addition alters software development practices. We performed a mixture of qualitative and quantitative studies with 14 interviewees and 342 survey respondents from 26 countries across four continents to elicit significant differences between the development of machine learning systems and the development of non-machine-learning systems. Our study uncovers significant differences in various aspects of software engineering (e.g., requirements, design, testing, and process) and work characteristics (e.g., skill variety, problem solving and task identity). …

An Analysis Of The Effect Of Tooth Wear On Bovid Identification, Juliet K. Brophy, Gregory J. Matthews, George K. Thiruvathukal

Mathematics and Statistics: Faculty Publications and Other Works

Previous research provides a method for reducing the subjectivity in taxonomic identification of species in the family Bovidae by quantifying the occlusal surface of molar teeth using elliptical Fourier analysis. In this current study, we specifically test what effect medium to late tooth wear has on the identification of bovids when using the form (size and shape) of the occlusal surface to classify specimens. To achieve this, the classification results of teeth with ≥85% of their occlusal surface (training data set) were compared with the results of teeth with <85% of their occlusal surface (test data set) due to wear. In the training data set, all tribes classified correctly >87% of the time with both Alcelaphini and Reduncini classifying correctly …

Shadow Detection In Aerial Images Using Machine Learning, Prasanna Reddy Pulakurthi

Theses

Shadows are present in a wide range of aerial images from forested scenes to urban environments. The presence of shadows degrades the performance of computer vision algorithms in a diverse set of applications such as image registration, object segmentation, object detection and recognition. Therefore, detection and mitigation of shadows is of paramount importance and can significantly improve the performance of computer vision algorithms in the aforementioned applications. There are several existing approaches to shadow detection in aerial images including chromaticity methods, texture-based methods, geometric, physics-based methods, and approaches using neural networks in machine learning.

In this thesis, we developed seven …

Prediction Of Treatment Target For Ventricular Tachycardia Using Multi-Task Machine Learning, Vishwanath Raman

Theses

Ventricular tachycardia (VT) is a type of abnormally fast heart rate that arises from abnormal electrical conductivity in the ventricles of the heart. Most VTs involve an abnormal origin of electrical activation inside the ventricles. An effective way to treat VT is catheter ablation that destroys the origin of VT by radiofrequency energy. To accurately localize the origin of VT therefore is an important factor for the success of ablation therapy. An Electrocardiogram (ECG) is a recording of the electrical activity of the heart with features that correspond to stages in the cardiac conduction system. Earlier works have shown that …

Predicting Switch-Like Behavior In Proteins Using Logistic Regression On Sequence-Based Descriptors, Benjamin Strauss

Master's Projects

Ligands can bind at specific protein locations, inducing conformational changes such as those involving secondary structure. Identifying these possible switches from sequence, including homology, is an important ongoing area of research. We attempt to predict possible secondary structure switches from sequence in proteins using machine learning, specifically a logistic regression approach with 48 N-acetyltransferases as our learning set and 5 sirtuins as our test set. Validated residue binary assignments of 0 (no change in secondary structure) and 1 (change in secondary structure) were determined (DSSP) from 3D X-ray structures for sets of virtually identical chains crystallized under different conditions. Our …

Design And Experimental Evaluation Of Deepmarket: An Edge Computing Marketplace With Distributed Tensorflow Execution Capability, Soyoung Kim

Dissertations and Theses

There is a rise in demand among machine learning researchers for powerful computational resources to train complex machine learning models, e.g., deep learning models. In order to train these models in a reasonable amount of time, the training is often distributed among multiple machines; yet paying for such machines (either through renting them on cloud data centers or building a local infrastructure) is costly. DeepMarket attempts to reduce these costs by creating a marketplace that integrates multiple computational resources over a distributed TensorFlow framework. Instead of requiring users to rent expensive GPU/CPUs from a third-party cloud provider, DeepMarket allows users …

Identifying Depression In The National Health And Nutrition Examination Survey Data Using A Deep Learning Algorithm, Jihoon Oh, Kyongsik Yun, Uri Maoz, Tae-Suk Kim, Jeong-Ho Chae

Psychology Faculty Articles and Research

Background

As depression is the leading cause of disability worldwide, large-scale surveys have been conducted to establish the occurrence and risk factors of depression. However, accurately estimating epidemiological factors leading up to depression has remained challenging. Deep-learning algorithms can be applied to assess the factors leading up to prevalence and clinical manifestations of depression.

Methods

Customized deep-neural-network and machine-learning classifiers were assessed using survey data from 19,725 participants from the NHANES database (from 1999 through 2014) and 4949 from the South Korea NHANES (K-NHANES) database in 2014.

Results

A deep-learning algorithm showed area under the receiver operating characteristic curve (AUCs) …

Automatic Cancer Tissue Detection Using Multispectral Photoacoustic Imaging, Kamal Jnawali

Theses

Convolutional neural networks (CNNs) have become increasingly popular in recent years because of their ability to tackle complex learning problems such as object detection, and object localization. They are being used for a variety of tasks, such as tissue abnormalities detection and localization, with an accuracy that comes close to the level of human predictive performance in medical imaging. The success is primarily due to the ability of CNNs to extract the discriminant features at multiple levels of abstraction.

Photoacoustic (PA) imaging is a promising new modality that is gaining significant clinical potential. The availability of a large dataset of …

One-Class Order Embedding For Dependency Relation Prediction, Meng-Fen Chiang, Ee-Peng Lim, Wang-Chien Lee, Xavier Jayaraj Siddarth Ashok, Philips Kokoh Prasetyo

Research Collection School Of Computing and Information Systems

Learning the dependency relations among entities and the hierarchy formed by these relations by mapping entities into some order embedding space can effectively enable several important applications, including knowledge base completion and prerequisite relations prediction. Nevertheless, it is very challenging to learn a good order embedding due to the existence of partial ordering and missing relations in the observed data. Moreover, most application scenarios do not provide non-trivial negative dependency relation instances. We therefore propose a framework that performs dependency relation prediction by exploring both rich semantic and hierarchical structure information in the data. In particular, we propose several negative …

Coral Reef Change Detection In Remote Pacific Islands Using Support Vector Machine Classifiers, Justin J. Gapper, Hesham El-Askary, Erik Linstead, Thomas Piechota

Mathematics, Physics, and Computer Science Faculty Articles and Research

Despite the abundance of research on coral reef change detection, few studies have been conducted to assess the spatial generalization principles of a live coral cover classifier trained using remote sensing data from multiple locations. The aim of this study is to develop a machine learning classifier for coral dominated benthic cover-type class (CDBCTC) based on ground truth observations and Landsat images, evaluate the performance of this classifier when tested against new data, then deploy the classifier to perform CDBCTC change analysis of multiple locations. The proposed framework includes image calibration, support vector machine (SVM) training and tuning, statistical assessment …

High‑Throughput Analysis Of Leaf Physiological And Chemical Traits With Vis–Nir–Swir Spectroscopy: A Case Study With A Maize Diversity Panel, Yufeng Ge, Abbas Atefi, Huichun Zhang, Chenyong Miao, Raghuprakash Kastoori Ramamurthy, Brandi Sigmon, Jinliang Yang, James C. Schnable

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Hyperspectral reflectance data in the visible, near infrared and shortwave infrared range (VIS–NIR– SWIR, 400–2500 nm) are commonly used to nondestructively measure plant leaf properties. We investigated the usefulness of VIS–NIR–SWIR as a high-throughput tool to measure six leaf properties of maize plants including chlorophyll content (CHL), leaf water content (LWC), specific leaf area (SLA), nitrogen (N), phosphorus (P), and potassium (K). This assessment was performed using the lines of the maize diversity panel. Data were collected from plants grown in greenhouse condition, as well as in the field under two nitrogen application regimes. Leaf-level hyperspectral data were collected with …

Development Of A Recommender System For Dental Care Using Machine Learning, Man Hung, Julie Xu, Evelyn Lauren, Maren Wright Voss, Megan N. Rosales, Weicong Su, Bianca Ruiz-Negrón, Yao He, Wei Li, Frank W. Licari

Extension Research

Resource mismanagement along with the underutilization of dental care has led to serious health and economic consequences. Artificial intelligence was applied to a national health database to develop recommendations for dental care. The data were obtained from the 2013–2014 National Health and Nutrition Examination Survey to perform machine learning. Feature selection was done using LASSO in R to determine the best regression model. Prediction models were developed using several supervised machine learning algorithms, including logistic regression, support vector machine, random forest, and classification and regression tree. Feature selection by LASSO along with the inclusion of additional clinically relevant variables identified …

Incremental Data Annotation With Mask R-Cnn, Michael Miller

Theses and Dissertations

With the advent of object detection and instance segmentation algorithms, the complexity of annotating training data has compounded. In traditional image classification tasks, training images must only be given a label. This type of training data alone is not enough to perform detection or instance segmentation as we need additional object level information like bounding boxes or segmentation masks appended to the annotation. There are many tools that help a user process images to produce data annotations that contain bounding box and segmentation mask information. However, most of these are semi-supervised and require a user to be present for each …

Sparse General Non-Negative Matrix Factorization Based On Left Semi-Tensor Product, Zigang Chen, Lixiang Li, Haipeng Peng, Yuhong Liu, Haihua Zhu, Yixian Yang

Computer Science and Engineering

The dimension reduction of large scale high-dimensional data is a challenging task, especially the dimension reduction of face data and the accuracy increment of face recognition in the large scale face recognition system, which may cause large storage space and long recognition time. In order to further reduce the recognition time and the storage space in the large scale face recognition systems, on the basis of the general non-negative matrix factorization based on left semi-tensor (GNMFL) without dimension matching constraints proposed in our previous work, we propose a sparse GNMFL/L (SGNMFL/L) to decompose a large number of face data sets …

Automated Bioacoustics: Methods In Ecology And Conservation And Their Potential For Animal Welfare Monitoring, Michael P. Mcloughlin, Rebecca Stewart, Alan G. Mcelligott

Conservation Biology and Animal Welfare Collection

Vocalizations carry emotional, physiological and individual information. This suggests that they may serve as potentially useful indicators for inferring animal welfare. At the same time, automated methods for analysing and classifying sound have developed rapidly, particularly in the fields of ecology, conservation and sound scene classification. These methods are already used to automatically classify animal vocalizations, for example, in identifying animal species and estimating numbers of individuals. Despite this potential, they have not yet found widespread application in animal welfare monitoring. In this review, we first discuss current trends in sound analysis for ecology, conservation and sound classification. Following this, …

Approach For 4-D Trajectory Management Based On Hmm And Trajectory Similarity, Yi Lin, Bo Yang, Jianwei Zhang, Hong Liu

Journal of Marine Science and Technology–Taiwan

To improve the accuracy and stability of flight trajectory prediction, a novel four-dimensional (4-D) trajectory management approach is proposed in this paper, which consists of the estimation and updating procedure. Historical flight trajectories are proved to be safe and feasible based on the real-time traffic situation, and serve as the data foundation of 4-D trajectory management in this paper. To achieve the goal of 4-D trajectory management, we firstly apply probabilistic statistical models and machine learning approach to predict the fly-over time and altitude of waypoints along the planning route before the flight takes off. Hidden Markov Models (HMMs) are …

Field Drilling Data Cleaning And Preparation For Data Analytics Applications, Daniel Cardoso Braga

LSU Master's Theses

Throughout the history of oil well drilling, service providers have been continuously striving to improve performance and reduce total drilling costs to operating companies. Despite constant improvement in tools, products, and processes, data science has not played a large part in oil well drilling. With the implementation of data science in the energy sector, companies have come to see significant value in efficiently processing the massive amounts of data produced by the multitude of internet of thing (IOT) sensors at the rig. The scope of this project is to combine academia and industry experience to analyze data from 13 different …

Implementation Of Multivariate Artificial Neural Networks Coupled With Genetic Algorithms For The Multi-Objective Property Prediction And Optimization Of Emulsion Polymers, David Chisholm

Master's Theses

Machine learning has been gaining popularity over the past few decades as computers have become more advanced. On a fundamental level, machine learning consists of the use of computerized statistical methods to analyze data and discover trends that may not have been obvious or otherwise observable previously. These trends can then be used to make predictions on new data and explore entirely new design spaces. Methods vary from simple linear regression to highly complex neural networks, but the end goal is similar. The application of these methods to material property prediction and new material discovery has been of high interest …

Basalt Tectonic Discrimination Using Combined Machine Learning Approach, Qiubing Ren, Mingchao Li, Shuai Han, Ye Zhang, Qi Zhang, Jonathan Shi

Faculty Publications

Geochemical discrimination of basaltic magmatism from different tectonic settings remains an essential part of recognizing the magma generation process within the Earth’s mantle. Discriminating among mid-ocean ridge basalt (MORB), ocean island basalt (OIB) and island arc basalt (IAB) is that matters to geologists because they are the three most concerned basalts. Being a supplement to conventional discrimination diagrams, we attempt to utilize the machine learning algorithm (MLA) for basalt tectonic discrimination. A combined MLA termed swarm optimized neural fuzzy inference system (SONFIS) was presented based on neural fuzzy inference system and particle swarm optimization. Two geochemical datasets of basalts from …

Essays In The Application Of Machine Learning In Development Economics, Dweepobotee Brahma

Dissertations

This dissertation comprises four essays which apply Machine Learning (ML) techniques to examine India’s progress towards meeting several child-health targets under United Nation’s “Sustainable Development Goals (SDG) 2030”. The application of novel ML techniques unmasks certain detailed empirical aspects of the road to meeting specific indicators of SDG - child mortality, malnutrition, immunization coverage and health-expenses.

The first essay employs multiple parametric and non-parametric Machine Learning (ML) techniques (LASSO, Classification Random Forest, Boosted Logistic Regression, Boosted Classification Trees) to build predictive models for the incidences of neonatal and infant mortality. A large national level household survey dataset is used. All …

Exploring The Dynamics Of Scientific Research, Shilpa Lakhanpal

Dissertations

Scientific research papers present the research endeavors of numerous scientists around the world, and are documented across multitudes of technical conference proceedings, and other such publications. Given the plethora of such research data, if we could automate the extraction of key interesting areas of research, and provide access to this new information, it would make literature searches incredibly easier for researchers. This in turn could be very useful for them in furthering their research agenda. With this goal in mind, we have endeavored to provide such solutions through our research. Specifically, the focus of our research is to design, analyze …

Robot Navigation In Cluttered Environments With Deep Reinforcement Learning, Ryan Weideman

Master's Theses

The application of robotics in cluttered and dynamic environments provides a wealth of challenges. This thesis proposes a deep reinforcement learning based system that determines collision free navigation robot velocities directly from a sequence of depth images and a desired direction of travel. The system is designed such that a real robot could be placed in an unmapped, cluttered environment and be able to navigate in a desired direction with no prior knowledge. Deep Q-learning, coupled with the innovations of double Q-learning and dueling Q-networks, is applied. Two modifications of this architecture are presented to incorporate direction heading information that …

Evaluating Projections And Developing Projection Models For Daily Fantasy Basketball, Eric C. Evangelista

Master's Theses

Daily fantasy sports (DFS) has grown in popularity with millions of participants throughout the world. However, studies have shown that most profits from DFS contests are won by only a small percentage of players. This thesis addresses the challenges faced by DFS participants by evaluating sources that provide player projections for NBA DFS contests and by developing machine learning models that produce competitive player projections.

External sources are evaluated by constructing daily lineups based on the projections offered and evaluating those lineups in the context of all potential lineups, as well as those submitted by participants in competitive FanDuel DFS …

Predicting Climate Types For The Continental United States Using Unsupervised Clustering Techniques, D. Sathiaraj, X. Huang, J. Chen

Faculty Publications

The problem of clustering climate data observation sites and grouping them by their climate types is considered. Machine learning–based clustering algorithms are used in analyzing climate data time series from more than 3,000 climate observation sites in the United States, with the objective of classifying climate type for regions across the United States. Understanding the climate type of a region has applications in public health, environment, actuarial science, insurance, agriculture, and engineering. In this study, daily climate data measurements for temperature and precipitation from the time period 1946–2015 have been used. The daily data observations were grouped into three derived …

Source Reconstruction Method Based On Machine Learning Algorithms, He Ming Yao, Lijun Jiang, Wei E.I. Sha

Electrical and Computer Engineering Faculty Research & Creative Works

This paper proposes a new source reconstruction method (SRM) based on deep learning. The conventional SRM usually requires oversampled measurements data to ensure higher accuracy. Thus, conventional SRM numerical system is usually highly singular. A deep convolutional neural network (ConvNet) is proposed to reconstruct the equivalent sources of the target to overcome difficulty. The deep ConvNet allows us to employ less data samples. Besides, the ill-conditioned numerical system can be effectively avoided. Numerical examples are presented to demonstrate the feasibility and accuracy of the proposed method. Its performance is also compared with the traditional neural network and interpolation method. Moreover, …

Data-Driven Integral Reinforcement Learning For Continuous-Time Non-Zero-Sum Games, Yongliang Yang, Liming Wang, Hamidreza Modares, Dawei Ding, Yixin Yin, Donald C. Wunsch

Electrical and Computer Engineering Faculty Research & Creative Works

This paper develops an integral value iteration (VI) method to efficiently find online the Nash equilibrium solution of two-player non-zero-sum (NZS) differential games for linear systems with partially unknown dynamics. To guarantee the closed-loop stability about the Nash equilibrium, the explicit upper bound for the discounted factor is given. To show the efficacy of the presented online model-free solution, the integral VI method is compared with the model-based off-line policy iteration method. Moreover, the theoretical analysis of the integral VI algorithm in terms of three aspects, i.e., positive definiteness properties of the updated cost functions, the stability of the closed-loop …

Model-Based Deep Autoencoders For Characterizing Discrete Data With Application To Genomic Data Analysis, Tian Tian

Dissertations

Deep learning techniques have achieved tremendous successes in a wide range of real applications in recent years. For dimension reduction, deep neural networks (DNNs) provide a natural choice to parameterize a non-linear transforming function that maps the original high dimensional data to a lower dimensional latent space. Autoencoder is a kind of DNNs used to learn efficient feature representation in an unsupervised manner. Deep autoencoder has been widely explored and applied to analysis of continuous data, while it is understudied for characterizing discrete data. This dissertation focuses on developing model-based deep autoencoders for modeling discrete data. A motivating example of …

Statistical Machine Learning Methods For Mining Spatial And Temporal Data, Fei Tan

Dissertations

Spatial and temporal dependencies are ubiquitous properties of data in numerous domains. The popularity of spatial and temporal data mining has thus grown with the increasing prevalence of massive data. The presence of spatial and temporal attributes not only provides complementary useful perspectives, but also poses new challenges to the representation and integration into the learning procedure. In this dissertation, the involved spatial and temporal dependencies are explored with three genres: sample-wise, feature-wise, and target-wise. A family of novel methodologies is developed accordingly for the dependency representation in respective scenarios.

First, dependencies among discrete, continuous and repeated observations are studied …