Open Access. Powered by Scholars. Published by Universities.®

Physical Sciences and Mathematics Commons™

Open Access. Powered by Scholars. Published by Universities.®

Theses/Dissertations

Statistics and Probability

University of Louisville

2017

Articles 1 - 7 of 7

Full-Text Articles in Physical Sciences and Mathematics

Sample Size Calculations And Normalization Methods For Rna-Seq Data., Xiaohong Li Dec 2017

Sample Size Calculations And Normalization Methods For Rna-Seq Data., Xiaohong Li

Electronic Theses and Dissertations

High-throughput RNA sequencing (RNA-seq) has become the preferred choice for transcriptomics and gene expression studies. With the rapid growth of RNA-seq applications, sample size calculation methods for RNA-seq experiment design and data normalization methods for DEG analysis are important issues to be explored and discussed. The underlying theme of this dissertation is to develop novel sample size calculation methods in RNA-seq experiment design using test statistics. I have also proposed two novel normalization methods for analysis of RNA-seq data. In chapter one, I present the test statistical methods including Wald’s test, log-transformed Wald’s test and likelihood ratio test statistics for …

Go to article

Functional Data Analysis Methods For Predicting Disease Status., Sarah Kendrick Dec 2017

Functional Data Analysis Methods For Predicting Disease Status., Sarah Kendrick

Electronic Theses and Dissertations

Introduction: Differential scanning calorimetry (DSC) is used to determine thermally-induced conformational changes of biomolecules within a blood plasma sample. Recent research has indicated that DSC curves (or thermograms) may have different characteristics based on disease status and, thus, may be useful as a monitoring and diagnostic tool for some diseases. Since thermograms are curves measured over a range of temperature values, they are often considered as functional data. In this dissertation we propose and apply functional data analysis (FDA) techniques to analyze DSC data from the Lupus Family Registry and Repository (LFRR). The aim is to develop FDA methods to …

Go to article

Bayesian Approach On Short Time-Course Data Of Protein Phosphorylation, Casual Inference For Ordinal Outcome And Causal Analysis Of Dietary And Physical Activity In T2dm Using Nhanes Data., You Wu Aug 2017

Bayesian Approach On Short Time-Course Data Of Protein Phosphorylation, Casual Inference For Ordinal Outcome And Causal Analysis Of Dietary And Physical Activity In T2dm Using Nhanes Data., You Wu

Electronic Theses and Dissertations

This dissertation contains three different projects in proteomics and causal inferences. In the first project, I apply a Bayesian hierarchical model to assess the stability of phosphorylated proteins under short-time cold ischemia. This study provides inference on the stability of these phosphorylated proteins, which is valuable when using these proteins as biomarkers for a disease. in the second project, I perform a comparative study of different confounding-adjusted to estimate the treatment effect when the outcome variable is ordinal using observational data. The adjusted U-statistics method is compared with other methods such as ordinal logistic regression, propensity score based stratification and …

Go to article

Estimation Of The Three Key Parameters And The Lead Time Distribution In Lung Cancer Screening., Ruiqi Liu Aug 2017

Estimation Of The Three Key Parameters And The Lead Time Distribution In Lung Cancer Screening., Ruiqi Liu

Electronic Theses and Dissertations

This dissertation contains three research projects on cancer screening probability modeling. Cancer screening is the primary technique for early detection. The goal of screening is to catch the disease early before clinical symptoms appear. In these projects, the three key parameters and lead time distribution were estimated to provide a statistical point of view on the effectiveness of cancer screening programs. In the first project, cancer screening probability model was used to analyze the computed tomography (CT) scan group in the National Lung Screening Trial (NLST) data. Three key parameters were estimated using Bayesian approach and Markov Chain Monte Carlo …

Go to article

A Cross-Sectional Exploration Of Household Financial Reactions And Homebuyer Awareness Of Registered Sex Offenders In A Rural, Suburban, And Urban County., John Charles Navarro Aug 2017

A Cross-Sectional Exploration Of Household Financial Reactions And Homebuyer Awareness Of Registered Sex Offenders In A Rural, Suburban, And Urban County., John Charles Navarro

Electronic Theses and Dissertations

As stigmatized persons, registered sex offenders betoken instability in communities. Depressed home sale values are associated with the presence of registered sex offenders even though the public is largely unaware of the presence of registered sex offenders. Using a spatial multilevel approach, the current study examines the role registered sex offenders influence sale values of homes sold in 2015 for three U.S. counties (rural, suburban, and urban) located in Illinois and Kentucky within the social disorganization framework. Homebuyers were surveyed to examine whether awareness of local registered sex offenders and the homebuyer’s community type operate as moderators between home selling …

Go to article

Likelihood-Based Methods For Analysis Of Copy Number Variation Using Next Generation Sequencing Data., Udika Iroshini Bandara Aug 2017

Likelihood-Based Methods For Analysis Of Copy Number Variation Using Next Generation Sequencing Data., Udika Iroshini Bandara

Electronic Theses and Dissertations

A Copy Number Variation (CNV) detection problem is considered using Circular Binary Segmentation (CBS) procedures, including newly developed procedures based on likelihood ratio tests with the parametric bootstrap for models based on discrete distributions for count data (Poisson and negative binomial) and a widely-used DNAcopy package. Results from the literature concerning maximum likelihood estimation for the negative binomial distribution are reviewed. The Newton-Raphson method is used to find the root of the derivative of the profile log likelihood function when applicable, and it is proven that this method converges to the true Maximum Likeihood Estimate (MLE), if the starting point …

Go to article

Novel Statistical Approaches For Missing Values In Truncated High-Dimensional Metabolomics Data With A Detection Threshold., Jasmit Sureshkumar Shah May 2017

Novel Statistical Approaches For Missing Values In Truncated High-Dimensional Metabolomics Data With A Detection Threshold., Jasmit Sureshkumar Shah

Electronic Theses and Dissertations

Despite considerable advances in high throughput technology over the last decade, new challenges have emerged related to the analysis, interpretation, and integration of high-dimensional data. The arrival of omics datasets has contributed to the rapid improvement of systems biology, which seeks the understanding of complex biological systems. Metabolomics is an emerging omics field, where mass spectrometry technologies generate high dimensional datasets. As advances in this area are progressing, the need for better analysis methods to provide correct and adequate results are required. While in other omics sectors such as genomics or proteomics there has and continues to be critical understanding …

Go to article