Statistics and Probability Commons^™

Inferring Gene Regulatory Networks From A Population Of Yeast Segregants, Chen Chen, Dabao Zhang, Tony R. Hazbun, Min Zhang

Purdue University Libraries Open Access Publishing Fund

Constructing gene regulatory networks is crucial to unraveling the genetic architecture of complex traits and to understanding the mechanisms of diseases. On the basis of gene expression and single nucleotide polymorphism data in the yeast, Saccharomyces cerevisiae, we constructed gene regulatory networks using a two-stage penalized least squares method. A large system of structural equations via optimal prediction of a set of surrogate variables was established at the first stage, followed by consistent selection of regulatory effects at the second stage. Using this approach, we identified subnetworks that were enriched in gene ontology categories, revealing directional regulatory mechanisms controlling …

Volleyball Overhead Swing Volume And Injury Frequency Over The Course Of A Season, Heather Wolfe, Katherine Poole, Alejandro G. Villasante Tezanos, Robert A. English, Timothy L. Uhl

Statistics Faculty Publications

Background: Overuse injuries are common in volleyball; however, few studies exist that quantify the workload of a volleyball athlete in a season. The relationship between workload and shoulder injury has not been extensively studied in women's collegiate volleyball athletes.

Hypothesis/Purpose: This study aims to quantify shoulder workloads by counting overhead swings during practice and matches. The purpose of the current study is to provide a complete depiction of typical overhead swings, serves, and hits, which occur in both practices and matches. The primary hypothesis was that significantly more swings will occur in practices compared to matches. The secondary hypothesis was …

One-Dimensional Excited Random Walk With Unboundedly Many Excitations Per Site, Omar Chakhtoun

Dissertations, Theses, and Capstone Projects

We study a discrete time excited random walk on the integers lattice requiring a tail decay estimate on the number of excitations per site and extend the existing framework, methods, and results to a wider class of excited random walks.

We give criteria for recurrence versus transience, ballisticity versus zero linear speed, completely classify limit laws in the transient regime, and establish a functional limit laws in the recurrence regime.

Nonparametric Depth And Quantile Regression For Functional Data, Joydeep Chowdhury, Probal Chaudhuri

Journal Articles

We investigate nonparametric regression methods based on spatial depth and quantiles when the response and the covariate are both functions. As in classical quantile regression for finite dimensional data, regression techniques developed here provide insight into the influence of the functional covariate on different parts, like the center as well as the tails, of the conditional distribution of the functional response. Depth and quantile based nonparametric regression methods are useful to detect heteroscedasticity in functional regression. We derive the asymptotic behavior of the nonparametric depth and quantile regression estimates, which depend on the small ball probabilities in the covariate space. …

Application Of A Hybrid Statistical–Dynamical System To Seasonal Prediction Of North American Temperature And Precipitation, Sarah Strazzo, Dan C. Collins, Andrew Schepen, Q. J. Wang, Emily Becker, Liweli Jia

Publications

Recent research demonstrates that dynamical models sometimes fail to represent observed teleconnection patterns associated with predictable modes of climate variability. As a result, model forecast skill may be reduced. We address this gap in skill through the application of a Bayesian postprocessing technique—the calibration, bridging, and merging (CBaM) method—which previously has been shown to improve probabilistic seasonal forecast skill over Australia. Calibration models developed from dynamical model reforecasts and observations are employed to statistically correct dynamical model forecasts. Bridging models use dynamical model forecasts of relevant climate modes (e.g., ENSO) as predictors of remote temperature and precipitation. Bridging and calibration …

Indonesia And Central Asia: Romanticizing Authoritarian Regime In The Past?, Mochamad Aviandy

International Review of Humanities Studies

Even though countries in Central Asia and Indonesia seem to be unrelated, both actually have experienced authoritarian regime and implemented decentralization system after that regime collapsed. Nevertheless, decentralization along with non-authoritarian regime does not automatically bring the desired good result since a new authoritarian regime based on decentralization appears. As a result, the citizens long for the welfare of the centralism system. Before talking further about the comparison of both regions, it is better to have a good understanding of each region.

Opioids And Cerebral Physiology In The Acute Management Of Traumatic Brain Injury: A Systematic Review, Joshua Weiner, Amanda Mcintyre, Shannon Janzen, Magdalena Mirkowski, Heather M. Mackenzie, Robert Teasell

Epidemiology and Biostatistics Publications

Background: Following traumatic brain injury (TBI), optimization of cerebral physiology is recommended to promote more favourable patient outcomes. Accompanying pain and agitation are commonly treated with sedative and analgesic agents, such as opioids. However, the impact of opioids on certain aspects of cerebral physiology is not well established.

Objective: To conduct a systematic review of the evidence on the effect of opioids on cerebral physiology in TBI during acute care.

Methods: A comprehensive literature search was conducted in five electronic databases for articles published in English up to November 2017. Studies were included if: (1) the study sample was human …

An Evaluation Of Training Size Impact On Validation Accuracy For Optimized Convolutional Neural Networks, Jostein Barry-Straume, Adam Tschannen, Daniel W. Engels, Edward Fine

SMU Data Science Review

In this paper, we present an evaluation of training size impact on validation accuracy for an optimized Convolutional Neural Network (CNN). CNNs are currently the state-of-the-art architecture for object classification tasks. We used Amazon’s machine learning ecosystem to train and test 648 models to find the optimal hyperparameters with which to apply a CNN towards the Fashion-MNIST (Mixed National Institute of Standards and Technology) dataset. We were able to realize a validation accuracy of 90% by using only 40% of the original data. We found that hidden layers appear to have had zero impact on validation accuracy, whereas the neural …

Comparisons Of Performance Between Quantum And Classical Machine Learning, Christopher Havenstein, Damarcus Thomas, Swami Chandrasekaran

SMU Data Science Review

In this paper, we present a performance comparison of machine learning algorithms executed on traditional and quantum computers. Quantum computing has potential of achieving incredible results for certain types of problems, and we explore if it can be applied to machine learning. First, we identified quantum machine learning algorithms with reproducible code and had classical machine learning counterparts. Then, we found relevant data sets with which we tested the comparable quantum and classical machine learning algorithm's performance. We evaluated performance with algorithm execution time and accuracy. We found that quantum variational support vector machines in some cases had higher accuracy …

Political Profiling Using Feature Engineering And Nlp, Chiranjeevi Mallavarapu, Ramya Mandava, Sabitri Kc, Ginger M. Holt

SMU Data Science Review

Public surveys are predominantly used when forecasting election outcomes. While the approach has had significant successes, the surveys have had their failures as well, especially when it comes to accuracy and reliability. As a result, it becomes challenging for political parties to spend their campaign budgets in a manner that facilitates the growth of a favorable and verifiable public opinion. Consequently, it is critical that a more accurate methodology to predict election outcome is developed. In this paper, we present an evaluation of the impact of utilizing dynamic public data on predicting the outcome of elections. Our model yielded a …

Pedestrian Safety -- Fundamental To A Walkable City, Joshua Herrera, Patrick Mcdevitt, Preeti Swaminathan, Raghuram Srinivas

SMU Data Science Review

In this paper, we present a method to identify urban areas with a higher likelihood of pedestrian safety related events. Pedestrian safety related events are pedestrian-vehicle interactions that result in fatalities, injuries, accidents without injury, or near--misses between pedestrians and vehicles. To develop a solution to this problem of identifying likely event locations, we assemble data, primarily from the City of Cincinnati and Hamilton County, that include safety reports from a five year period, geographic information for these events, citizen survey of pedestrian reported concerns, non-emergency requests for service for any cause in the city, property values and public transportation …

Improving Vix Futures Forecasts Using Machine Learning Methods, James Hosker, Slobodan Djurdjevic, Hieu Nguyen, Robert Slater

SMU Data Science Review

The problem of forecasting market volatility is a difficult task for most fund managers. Volatility forecasts are used for risk management, alpha (risk) trading, and the reduction of trading friction. Improving the forecasts of future market volatility assists fund managers in adding or reducing risk in their portfolios as well as in increasing hedges to protect their portfolios in anticipation of a market sell-off event. Our analysis compares three existing financial models that forecast future market volatility using the Chicago Board Options Exchange Volatility Index (VIX) to six machine/deep learning supervised regression methods. This analysis determines which models provide best …

Improving Gas Well Economics With Intelligent Plunger Lift Optimization Techniques, Atsu Atakpa, Emmanuel Farrugia, Ryan Tyree, Daniel W. Engels, Charles Sparks

SMU Data Science Review

In this paper, we present an approach to reducing bottom hole plunger dwell time for artificial lift systems. Lift systems are used in a process to remove contaminants from a natural gas well. A plunger is a mechanical device used to deliquefy natural gas wells by removing contaminants in the form of water, oil, wax, and sand from the wellbore. These contaminants decrease bottom-hole pressure which in turn hampers gas production by forming a physical barrier within the well tubing. As the plunger descends through the well it emits sounds which are recorded at the surface by an echo-meter that …

Gene Co-Expression Networks Analysis Reveal Novel Molecular Endotypes In Alpha-1 Antitrypsin Deficiency, Jen-Hwa Chu, Wenlan Zang

Yale Day of Data

Rationale:Alpha-1 antitrypsin deficiency (AATD) is a genetic condition that predisposes to early onset pulmonary emphysema and airways obstruction. The exact mechanism through which AATD leads to lung disease is incompletely understood.

Objectives: To investigate the effect of AAT genotype and augmentation therapy on bronchoalveolar lavage (BAL) and peripheral blood mononuclear cells (PBMC) transcriptome, while examining the link between gene expression profiles, and clinical features of AATD.

Methods: We performed RNA-Seq on RNA extracted from BAL and PBMC on samples obtained from 89 AATD patients enrolled in the Genomic Research in Alpha-1 Antitrypsin Deficiency and Sarcoidosis (GRADS) study. Differential …

Non-Invasive Analysis Of The Sputum Transcriptome Discriminates Clinical Phenotypes Of Asthma, Xiting Yan

Yale Day of Data

Whole transcriptome wide gene expression profiles in the sputum and circulation from 100 asthma patients were measured using the Affymetrix HuGene 1.0ST arrays. Unsupervised clustering analysis based on pathways from KEGG were used to identify TEA clusters of patients from the sputum gene expression profiles. The identified TEA clusters have significantly different pre-bronchodilator FEV1, bronchodilator responsiveness, exhaled nitric oxide levels, history of hospitalization for asthma and history of intubation. Evaluation of TEA clusters in children from Asthma BRIDGE cohort confirmed the identified differences in intubation and hospitalization. Furthermore, evaluation of the TH2 gene signatures suggested a much lower prevalence of …

A Novel Pathway-Based Distance Score Enhances Assessment Of Disease Heterogeneity In Gene Expression, Yunqing Liu, Xiting Yan

Yale Day of Data

Distance-based unsupervised clustering of gene expression data is commonly used to identify heterogeneity in biologic samples. However, high noise levels in gene expression data and the relatively high correlation between genes are often encountered, so traditional distances such as Euclidean distance may not be effective at discriminating the biological differences between samples. In this study, we developed a novel computational method to assess the biological differences based on pathways by assuming that ontologically defined biological pathways in biologically similar samples have similar behavior. Application of this distance score results in more accurate, robust, and biologically meaningful clustering results in both …

Critical Fault-Detecting Time Evaluation In Software With Discrete Compound Poisson Models, Min-Hsiung Hsieh, Shuen-Lin Jeng, Paul Kvam

Department of Math & Statistics Faculty Publications

Software developers predict their product’s failure rate using reliability growth models that are typically based on nonhomogeneous Poisson (NHP) processes. In this article, we extend that practice to a nonhomogeneous discrete-compound Poisson process that allows for multiple faults of a system at the same time point. Along with traditional reliability metrics such as average number of failures in a time interval, we propose an alternative reliability index called critical fault-detecting time in order to provide more information for software managers making software quality evaluation and critical market policy decisions. We illustrate the significant potential for improved analysis using wireless failure …

Ample Provision: A Preliminary Study Relating Budget Composition And High School Graduation Rates In Select Washington State Public School Districts, Gregory P. Gadow

All Undergraduate Projects

How to allocate scarce resources for an optimal outcome is of keen interest to those who set the budgets in public education. Simply throwing money at schools is not enough; it is important that money is spent where it will do the most good. This study considers Washington State public school districts and examines how the share of per-student expenditures in seven budget categories relates to on-time high school graduation rates. It is an investigative study, exploring whether there is enough evidence to merit further, more in-depth research. Using budget and graduation information from academic years 1997-98 through 2016-17 for …

Extensions Of Schauder's And Darbo's Fixed Point Theorems, Zhaocai Hao, Martin Bohner, Junjun Wang

Mathematics and Statistics Faculty Research & Creative Works

In this paper, some new extensions of Schauder's and Darbo's fixed point theorems are given. As applications of the main results, the existence of global solutions for first-order nonlinear integro-differential equations of mixed type in a real Banach space is investigated.

Variance Estimation In Inverse Probability Weighted Cox Models, Di Shu, Jessica G. Young, Sengwee Toh, Rui Wang

Harvard University Biostatistics Working Paper Series

Inverse probability weighted Cox models can be used to estimate marginal hazard ratios under different treatments interventions in observational studies. To obtain variance estimates, the robust sandwich variance estimator is often recommended to account for the induced correlation among weighted observations. However, this estimator does not incorporate the uncertainty in estimating the weights and tends to overestimate the variance, leading to inefficient inference. Here we propose a new variance estimator that combines the estimation procedures for the hazard ratio and weights using stacked estimating equations, with additional adjustments for the sum of non-independent and identically distributed terms in a Cox …