Statistics and Probability Commons^™

Stretching Hiv Treatment: A Replication Study Of Task Shifting In South Africa, Baojiang Chen, Morshed Alam

Journal Articles: Biostatistics

The Streamlining Tasks & Roles to Expand Treatment and Care for HIV (STRETCH) program was developed to increase the reach of antiretroviral therapy (ART) for HIV/AIDS patients in Sub-Saharan Africa by training nurses to prescribe, initiate, and maintain ART. Fairall and colleagues conducted a cluster-randomized trial to determine the effects/impact of STRETCH on patient health outcomes in South Africa between 2008 and 2010. The purpose of our replication study is to evaluate Fairall and colleagues' findings. We conducted push button and pure replication studies and measurement and estimation analyses (MEA). Our MEA validates the original findings: (1) overall, time to …

Global Warming Statistical Analysis, Jared Skinner

Williams Honors College, Honors Research Projects

This paper will investigate global warming and its effects on natural disasters. I will review the historic movements of climate change and activism, as well as the current discussions surrounding global warming. Secondly, I will examine various datasets, paying attention to the severity and frequency of specific natural disasters. I will then touch briefly on the topic of catastrophe modeling as it relates to the increased risk and losses associated with the discussed natural disasters and how those put the problem of global warming in a framework which financial and government institutions can grasp. I will also be analyzing economic …

Automatic 13C Chemical Shift Reference Correction Of Protein Nmr Spectral Data Using Data Mining And Bayesian Statistical Modeling, Xi Chen

Theses and Dissertations--Molecular and Cellular Biochemistry

Nuclear magnetic resonance (NMR) is a highly versatile analytical technique for studying molecular configuration, conformation, and dynamics, especially of biomacromolecules such as proteins. However, due to the intrinsic properties of NMR experiments, results from the NMR instruments require a refencing step before the down-the-line analysis. Poor chemical shift referencing, especially for ¹³C in protein Nuclear Magnetic Resonance (NMR) experiments, fundamentally limits and even prevents effective study of biomacromolecules via NMR. There is no available method that can rereference carbon chemical shifts from protein NMR without secondary experimental information such as structure or resonance assignment.

To solve this problem, we …

A Self-Contained Course In The Mathematical Theory Of Statistics For Scientists & Engineers With An Emphasis On Predictive Regression Modeling & Financial Applications., Tim Smith

Open Access Textbooks

Preface & Acknowledgments

This textbook is designed for a higher level undergraduate, perhaps even first year graduate, course for engineering or science students who are interested to gain knowledge of using data analysis to make predictive models. While there is no statistical perquisite knowledge required to read this book, due to the fact that the study is designed for the reader to truly understand the underlying theory rather than just learn how to read computer output, it would be best read with some familiarity of elementary statistics. The book is self-contained and the only true perquisite knowledge is a solid …

Assessing The Impact Of Incorporating Residential Histories Into The Spatial Analysis Of Cancer Risk, Anny-Claude Joseph

Theses and Dissertations

In many spatial epidemiologic studies, investigators use residential location at diagnosis as a surrogate for unknown environmental exposures or as a geographic basis for assigning measured exposures. Inherently, they make assumptions about the timing and location of pertinent exposures which may prove problematic when studying long latency diseases such as cancer.

In this work we explored how the association between environmental exposures and disease risk for long-latency health outcomes like cancer is affected by residential mobility. We used simulation studies conditioned on real data to evaluate the extent to which the commonly held assumption of no residential mobility 1) affected …

Latent Growth Model Approach To Characterize Maternal Prenatal Dna Methylation Trajectories, Dana Lapato

Theses and Dissertations

Background. DNA methylation (DNAm) is a removable chemical modification to the DNA sequence intimately associated with genomic stability, cellular identity, and gene expression. DNAm patterning reflects joint contributions from genetic, environmental, and behavioral factors. As such, differences in DNAm patterns may explain interindividual variability in risk liability for complex traits like major depression (MD). Hundreds of significant DNAm loci have been identified using cross-sectional association studies. This dissertation builds on that foundational work to explore novel statistical approaches for longitudinal DNAm analyses. Methods. Repeated measures of genome-wide DNAm and social and environmental determinants of health were collected up to six …

Spectral Methods For The Detection And Characterization Of Topologically Associated Domains, Kellen Garrison Cresswell

Theses and Dissertations

The three-dimensional (3D) structure of the genome plays a crucial role in gene expression regulation. Chromatin conformation capture technologies (Hi-C) have revealed that the genome is organized in a hierarchy of topologically associated domains (TADs), sub-TADs, and chromatin loops which is relatively stable across cell-lines and even across species. These TADs dynamically reorganize during development of disease, and exhibit cell- and conditionspecific differences. Identifying such hierarchical structures and how they change between conditions is a critical step in understanding genome regulation and disease development. Despite their importance, there are relatively few tools for identification of TADs and even fewer for …

Statistical Designs For Network A/B Testing, Victoria V. Pokhilko

Theses and Dissertations

A/B testing refers to the statistical procedure of experimental design and analysis to compare two treatments, A and B, applied to different testing subjects. It is widely used by technology companies such as Facebook, LinkedIn, and Netflix, to compare different algorithms, web-designs, and other online products and services. The subjects participating in these online A/B testing experiments are users who are connected in different scales of social networks. Two connected subjects are similar in terms of their social behaviors, education and financial background, and other demographic aspects. Hence, it is only natural to assume that their reactions to online products …

Essays On Mixture Models, Trevor R. Camper

College of Graduate Studies: Theses & Dissertations

When considering statistical scenarios where one can sample from populations that are not of interest for the purposes of a study, bivariate mixture models can be used to study the effect that this missampling can have on parameter estimation. In this thesis, we will examine the behavior that bivariate mixture models have on two statistical constructs: Cronbach's alpha \cite{C51}, and Spearman's rho \cite{S04}. Chapter 1 will introduce notions of mixture models and the definition of bias under mixture models which will serve as the central concept of this thesis. Chapter 2 will investigate a particular psychometric issue known as insufficient …

A Comparison Of Bayesian Estimation Techniques In A Multidimensional Two-Parameter Partial Credit Item Response Model, Peiyan Liu

Electronic Theses and Dissertations

Bayesian estimation methods have shown better performance than the traditional Marginal Maximum Likelihood (MML) estimation method for parameter estimation in relatively simple item response models. However, extant literature is lacking on the investigation of Bayesian parameter estimation approaches for a multidimensional two parameter partial credit (M2PPC) model, therefore this simulation study investigated the performance of two Bayesian Markov Chain Monte Carlo (MCMC) algorithms: Gibbs Sampler and Hamiltonian Monte Carlo-No-U-Turn-Sampler (HMC-NUTS) for M2PPC models' parameter estimation. It compared the estimation accuracy and computing speed in different combinations of situations, including prior choices, test lengths, and the relationships between dimensions.

The datasets …

Site- And Location-Adjusted Approaches To Adaptive Allocation Clinical Trial Designs, Brian S. Di Pace

Theses and Dissertations

Response-Adaptive (RA) designs are used to adaptively allocate patients in clinical trials. These methods have been generalized to include Covariate-Adjusted Response-Adaptive (CARA) designs, which adjust treatment assignments for a set of covariates while maintaining features of the RA designs. Challenges may arise in multi-center trials if differential treatment responses and/or effects among sites exist. We propose Site-Adjusted Response-Adaptive (SARA) approaches to account for inter-center variability in treatment response and/or effectiveness, including either a fixed site effect or both random site and treatment-by-site interaction effects to calculate conditional probabilities. These success probabilities are used to update assignment probabilities for allocating patients …

Methods For Evaluating Dropout Attrition In Survey Data, Camille J. Hochheimer

Theses and Dissertations

As researchers increasingly use web-based surveys, the ease of dropping out in the online setting is a growing issue in ensuring data quality. One theory is that dropout or attrition occurs in phases that can be generalized to phases of high dropout and phases of stable use. In order to detect these phases, several methods are explored. First, existing methods and user-specified thresholds are applied to survey data where significant changes in the dropout rate between two questions is interpreted as the start or end of a high dropout phase. Next, survey dropout is considered as a time-to-event outcome and …

Bayesian Nonparametric Analysis Of Longitudinal Data With Non-Ignorable Non-Monotone Missingness, Yu Cao

Theses and Dissertations

In longitudinal studies, outcomes are measured repeatedly over time, but in reality clinical studies are full of missing data points of monotone and non-monotone nature. Often this missingness is related to the unobserved data so that it is non-ignorable. In such context, pattern-mixture model (PMM) is one popular tool to analyze the joint distribution of outcome and missingness patterns. Then the unobserved outcomes are imputed using the distribution of observed outcomes, conditioned on missing patterns. However, the existing methods suffer from model identification issues if data is sparse in specific missing patterns, which is very likely to happen with a …

The Correlation Between Sleep And Lifespan In Drosophila Melanogaster, Joshua Randall Lisse

Masters Theses

”Adequate sleep is associated with an individual’s health. Too little sleep is associated with many health problems, including cardiovascular disease, obesity, and a general increase in all-cause mortality. Yet the molecular changes that link poor sleep and changes in health are still not well understood. Individuals have a unique daily need for sleep, and deviations from the animal’s regular sleeping patterns can be indicative of, or result in, underlying changes in its health. Therefore, we hypothesize that changes in the sleep architecture in Drosophila melanogaster reflect changes in the fly’s health.

We determined sleep architecture in wild-type male flies over …

Exploring A Bayesian Analysis Of Opinion Dynamics Using The Approximate Bayesian Computation Method, Jessica L. Bishop

Graduate Research Theses & Dissertations

Social media has created a whole new framework in the way we understand ones expression of opinion, and how ones' opinion can influence others. Models of opinion dynamics, such as a probabilistic modeling framework of opinion dynamics over time are given by Abir De, Isabel Valera, Niloy Ganguly, Sourangshu Bhattacharya, and Manuel Gomez Rodriguez in ``Learning and Forecasting Opinion Dynamics in Social Networks." In this paper, we will continue to explore their models, now coming from a Bayesian statistical standpoint, specifically looking at the Approximate Bayesian Computation (ABC) method for the computation of better estimations for the data. We will …

Impact Of Agreeableness On Virtual Team Performance Through Team Identification And Shared Mental Models, Alexandria Brown

Graduate Research Theses & Dissertations

Virtual teams help organizations efficiently utilize their employees for a task without the requirement of co-location. The literature on team performance suggests that teamwork is integral to a team’s success; however, in virtual teams this is often a challenge. Certain personality characteristics on virtual teams may be particularly important to the development of effective teamwork. An under-investigated factor is the role agreeableness in virtual team processes and how it affects the overall team performance. The main research question of this study is how the degree of agreeableness on a virtual team affects the overall team performance through predicted associations with …

Maximum Likelihood Estimation For A Heavy-Tailed Mixture Distribution, Philippe Kponbogan Dovoedo

Graduate Research Theses & Dissertations

In an increasingly connected global environment, “high-impact, low-probability" (HILP)

events can have devastating consequences and result in large insurance losses with a heavy-

tailed distribution. Examples of such events include Hurricane Katrina, the Deepwater

Horizon oil disaster and the Japanese nuclear crisis and tsunami. According to the 2012

Blackett Review of HILP Risks from the UK Government Office for Science, the

identification of low-probability risks, and the subsequent development of mitigation plans,

is complicated by their rare or conjectural nature, and their potential for causing impacts

beyond everyday experience. Extremal mixture models and more generally extreme value

analysis help assess …

Bivariate Cure Rate Model Using Copula Functions In Presence Of Censored Data And Covariates, Jie Huang

Graduate Research Theses & Dissertations

Bivariate survival cure rate models extend the understanding of time-to-event data by allowing for the formulation of more accurate and informative conclusion. These conclusions are obtainable from an analysis that accounts for a cured fraction of the population and dependence between paired units. We propose a mixture cure rate model where a correlation coefficient is used for the association between bivariate cure rate fractions and a new generalized Farlie Gumbel Morgenstern (FGM) copula function is applied to model the de-

pendence structure of bivariate survival times. Covariate effects are incorporated into two components of our model, cure rate fractions and …

Evaluation Of Epilepsy Surgery Using Bayesian Multinomial Regression, Kacy Danielle Kane

Graduate Research Theses & Dissertations

We are exploring the effectiveness of brain surgeries that are supposed to eliminate or reduce the frequency of seizures in young Epilepsy patients. The long-term effectiveness of brain surgeries is evaluated by ordinal categories and brings longitudinal categorical responses.

Using a Bayesian multinomial regression model we examine the responses by the lobe of brain and other covariates as well as time. To overcome computational difficulties we utilize latent variables for multinomial responses and compare the results with frequentists methods.

Bayesian Lasso Survival Analysis, Justin P. Neely

Graduate Research Theses & Dissertations

This thesis examines the use of Bayesian LASSO regression for survival data to estimate the survival function and to select significant covariates simultaneously. We consider survival times of patients with adenocarcinoma lung cancer. The survival and genetic data are available in the Cancer Genome Atlas (TCGA) Research Network. As a pilot study, within chromosome 5, we apply Bayesian LASSO regression to explore genetic markers that may help to identify crucial genes to determine survival times of patients. Using Gibbs sampling we can obtain Markov Chain Monte Carlo samples for regression coefficients and model variance as well as LASSO penalty from …