Statistical Models Commons^™

Statistical Approaches Of Gene Set Analysis With Quantitative Trait Loci For High-Throughput Genomic Studies., Samarendra Das

Electronic Theses and Dissertations

Recently, gene set analysis has become the first choice for gaining insights into the underlying complex biology of diseases through high-throughput genomic studies, such as Microarrays, bulk RNA-Sequencing, single cell RNA-Sequencing, etc. It also reduces the complexity of statistical analysis and enhances the explanatory power of the obtained results. Further, the statistical structure and steps common to these approaches have not yet been comprehensively discussed, which limits their utility. Hence, a comprehensive overview of the available gene set analysis approaches used for different high-throughput genomic studies is provided. The analysis of gene sets is usually carried out based on …

Quantifying The Simultaneous Effect Of Socio-Economic Predictors And Build Environment On Spatial Crime Trends, Alfieri Daniel Ek

Graduate Theses and Dissertations

Proper allocation of law enforcement agencies falls under the umbrella of risk terrainmodeling (Caplan et al., 2011, 2015; Drawve, 2016) that primarily focuses on crime prediction and prevention by spatially aggregating response and predictor variables of interest. Although mental health incidents demand resource allocation from law enforcement agencies and the city, relatively less emphasis has been placed on building spatial models for mental health incidents events. Analyzing spatial mental health events in Little Rock, AR over 2015 to 2018, we found evidence of spatial heterogeneity via Moran’s I statistic. A spatial modeling framework is then built using generalized linear models, …

Predicting Postoperative Delirium Risk For Intracranial Surgery: A Statistical Machine Learning Approach, Juliet Aygun, Alaina Bartfeld, Sahana Rayan

The Journal of Purdue Undergraduate Research

No abstract provided.

Lectures On Mathematical Computing With Python, Jay Gopalakrishnan

PDXOpen: Open Educational Resources

This open resource is a collection of class activities for use in undergraduate courses aimed at teaching mathematical computing, and computational thinking in general, using the python programming language. It was developed for a second-year course (MTH 271) revamped for a new undergraduate program in data science at Portland State University. The activities are designed to guide students' use of python modules effectively for scientific computation, data analysis, and visualization.

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Statistical Methodology To Establish A Benchmark For Evaluating Antimicrobial Resistance Genes Through Real Time Pcr Assay, Enakshy Dutta

Department of Statistics: Dissertations, Theses, and Student Research

Novel diagnostic tests are usually compared with gold standard tests for evaluating diagnostic accuracy. For assessing antimicrobial resistance (AMR) to bovine respiratory disease (BRD) pathogens, phenotypic broth microdilution method is used as gold standard (GS). The objective of the thesis is to evaluate the optimal cycle threshold (Ct) generated by real-time polymerase chain reaction (rtPCR) to genes that confer resistance that will translate to the phenotypic classification of AMR. Data from two different methodologies are assessed to identify Ct that will discriminate between resistance (R) and susceptibility (S). First, the receiver operating characteristic (ROC) curve was used to determine the …

Italian Sociologists: A Community Of Disconnected Groups, Aliakbar Akbaritabar, Vincent Traag, Alberto Caimo, Flaminio Squazzoni

Articles

Examining coauthorship networks is key to study scientific collaboration patterns and structural characteristics of scientific communities. Here, we studied coauthorship networks of sociologists in Italy, using temporal and multi-level quantitative analysis. By looking at publications indexed in Scopus, we detected research communities among Italian sociologists. We found that Italian sociologists are fractured in many disconnected groups. The giant connected component of the Italian sociology could be split into five main groups with a mixture of three main disciplinary topics: sociology of culture and communication (present in two groups), economic sociology (present in three groups) and general sociology (present in three …

Working Children On Java Island 2017, Yuniarti

International Programs

Children's wellbeing has currently become a global concern as many of them are engaged in the labor force. A small area estimation (SAE) technique, EBLUP under Fey Herriot model, is employed to reveal their number in regencies of Java Island. Statistics have been disaggregated by geographical location (urban/rural) and gender. These statistics are required by the government as the basis for policy making.

Novel Inference Methods For Generalized Linear Models Using Shrinkage Priors And Data Augmentation., Arinjita Bhattacharyya

Electronic Theses and Dissertations

Generalized linear models have broad applications in biostatistics and sociology. In a regression setup, the main target is to find a relevant set of predictors out of a large collection of covariates. Sparsity is the assumption that only a few of these covariates in a regression setup have a meaningful correlation with an outcome variate of interest. Sparsity is incorporated by regularizing the irrelevant slopes towards zero without changing the relevant predictors and keeping the resulting inferences intact. Frequentist variable selection and sparsity are addressed by popular techniques like Lasso, Elastic Net. Bayesian penalized regression can tackle the curse of …

Demand Forecasting In Wholesale Alcohol Distribution: An Ensemble Approach, Tanvi Arora, Rajat Chandna, Stacy Conant, Bivin Sadler, Robert Slater

SMU Data Science Review

In this paper, historical data from a wholesale alcoholic beverage distributor was used to forecast sales demand. Demand forecasting is a vital part of the sale and distribution of many goods. Accurate forecasting can be used to optimize inventory, improve cash ow, and enhance customer service. However, demand forecasting is a challenging task due to the many unknowns that can impact sales, such as the weather and the state of the economy. While many studies focus effort on modeling consumer demand and endpoint retail sales, this study focused on demand forecasting from the distributor perspective. An ensemble approach was applied …

Data-Driven Investment Decisions In P2p Lending: Strategies Of Integrating Credit Scoring And Profit Scoring, Yan Wang

Doctor of Data Science and Analytics Dissertations

In this dissertation, we develop and discuss several loan evaluation methods to guide the investment decisions for peer-to-peer (P2P) lending. In evaluating loans, credit scoring and profit scoring are the two widely utilized approaches. Credit scoring aims at minimizing the risk while profit scoring aims at maximizing the profit. This dissertation addresses the strengths and weaknesses of each scoring method by integrating them in various ways in order to provide the optimal investment suggestions for different investors. Before developing the methods for loan evaluation at the individual level, we applied the state-of-the-art method called the Long Short Term Memory (LSTM) …

A Monte Carlo Analysis Of Standard Error-Based Methods For Computing Confidence Intervals, Elayna Wichert

Masters Theses & Specialist Projects

The objective of this study is to empirically test existing techniques to calculate the likely range of values for a Classical Test Theory true score given an observed score. The traditional method for forming these confidence intervals has used the standard error of measurement (SEM) as the basis for this confidence interval. An alternate equation, the standard error of estimate (SEE), has been recommended in place of the SEM for this purpose, yet it remains overlooked in the field of psychometrics. It is important that the correct equation be used in various applications in personnel psychology. Monte Carlo analyses were …

An Automatic Interaction Detection Hybrid Model For Bankcard Response Classification, Yan Wang, Sherry Ni, Brian Stone

Published and Grey Literature from PhD Candidates

Data mining techniques have numerous applications in bankcard response modeling. Logistic regression has been used as the standard modeling tool in the financial industry because of its almost always desirable performance and its interpretability. In this paper, we propose a hybrid bankcard response model, which integrates decision tree-based chi-square automatic interaction detection (CHAID) into logistic regression. In the first stage of the hybrid model, CHAID analysis is used to detect the possible potential variable interactions. Then in the second stage, these potential interactions are served as the additional input variables in logistic regression. The motivation of the proposed hybrid model …

A Two-Stage Hybrid Model By Using Artificial Neural Networks As Feature Construction Algorithms, Yan Wang, Sherry Ni, Brian Stone

Published and Grey Literature from PhD Candidates

We propose a two-stage hybrid approach with neural networks as the new feature construction algorithms for bankcard response classifications. The hybrid model uses a very simple neural network structure as the new feature construction tool in the first stage, then the newly created features are used as the additional input variables in logistic regression in the second stage. The model is compared with the traditional one-stage model in credit customer response classification. It is observed that the proposed two-stage model outperforms the one-stage model in terms of accuracy, the area under the ROC curve, and KS statistic. By creating new …

A Xgboost Risk Model Via Feature Selection And Bayesian Hyper-Parameter Optimization, Yan Wang, Sherry Ni

Published and Grey Literature from PhD Candidates

This paper aims to explore models based on the extreme gradient boosting (XGBoost) approach for business risk classification. Feature selection (FS) algorithms and hyper-parameter optimizations are simultaneously considered during model training. The five most commonly used FS methods including weight by Gini, weight by Chi-square, hierarchical variable clustering, weight by correlation, and weight by information are applied to alleviate the effect of redundant features. Two hyper-parameter optimization approaches, random search (RS) and Bayesian tree-structuredParzen Estimator (TPE), are applied in XGBoost. The effect of different FS and hyper-parameter optimization methods on the model performance are investigated by the Wilcoxon Signed Rank …

Shrinkage Priors For Isotonic Probability Vectors And Binary Data Modeling, Philip S. Boonstra, Daniel R. Owen, Jian Kang

The University of Michigan Department of Biostatistics Working Paper Series

This paper outlines a new class of shrinkage priors for Bayesian isotonic regression modeling a binary outcome against a predictor, where the probability of the outcome is assumed to be monotonically non-decreasing with the predictor. The predictor is categorized into a large number of groups, and the set of differences between outcome probabilities in consecutive categories is equipped with a multivariate prior having support over the set of simplexes. The Dirichlet distribution, which can be derived from a normalized cumulative sum of gamma-distributed random variables, is a natural choice of prior, but using mathematical and simulation-based arguments, we show that …

Zero-Inflated Longitudinal Mixture Model For Stochastic Radiographic Lung Compositional Change Following Radiotherapy Of Lung Cancer, Viviana A. Rodríguez Romero

Theses and Dissertations

Compositional data (CD) is mostly analyzed as relative data, using ratios of components, and log-ratio transformations to be able to use known multivariable statistical methods. Therefore, CD where some components equal zero represent a problem. Furthermore, when the data is measured longitudinally, observations are spatially related and appear to come from a mixture population, the analysis becomes highly complex. For this matter, a two-part model was proposed to deal with structural zeros in longitudinal CD using a mixed-effects model. Furthermore, the model has been extended to the case where the non-zero components of the vector might a two component mixture …

Semiparametric And Nonparametric Methods For Comparing Biomarker Levels Between Groups, Yuntong Li

Theses and Dissertations--Statistics

Comparing the distribution of biomarker measurements between two groups under either an unpaired or paired design is a common goal in many biomarker studies. However, analyzing biomarker data is sometimes challenging because the data may not be normally distributed and contain a large fraction of zero values or missing values. Although several statistical methods have been proposed, they either require data normality assumption, or are inefficient. We proposed a novel two-part semiparametric method for data under an unpaired setting and a nonparametric method for data under a paired setting. The semiparametric method considers a two-part model, a logistic regression for …

Estimation Of The Treatment Effect With Bayesian Adjustment For Covariates, Li Xu

Theses and Dissertations--Statistics

The Bayesian adjustment for confounding (BAC) is a Bayesian model averaging method to select and adjust for confounding factors when evaluating the average causal effect of an exposure on a certain outcome. We extend the BAC method to time-to-event outcomes. Specifically, the posterior distribution of the exposure effect on a time-to-event outcome is calculated as a weighted average of posterior distributions from a number of candidate proportional hazards models, weighing each model by its ability to adjust for confounding factors. The Bayesian Information Criterion based on the partial likelihood is used to compare different models and approximate the Bayes factor. …

Statistical Intervals For Various Distributions Based On Different Inference Methods, Yixuan Zou

Theses and Dissertations--Statistics

Statistical intervals (e.g., confidence, prediction, or tolerance) are widely used to quantify uncertainty, but complex settings can create challenges to obtain such intervals that possess the desired properties. My thesis will address diverse data settings and approaches that are shown empirically to have good performance. We first introduce a focused treatment on using a single-layer bootstrap calibration to improve the coverage probabilities of two-sided parametric tolerance intervals for non-normal distributions. We then turn to zero-inflated data, which are commonly found in, among other areas, pharmaceutical and quality control applications. However, the inference problem often becomes difficult in the presence of …

Enhancing Models And Measurements Of Traffic-Related Air Pollutants For Health Studies Using Dispersion Modeling And Bayesian Data Fusion, Stuart A. Batterman, Veronica J. Berrocal, Chad Milando, Owais Gilani, Saravanan Arunachalam, K. Max Zhang

Faculty Journal Articles

Research Report 202 describes a study led by Dr. Stuart Batterman at the University of Michigan, Ann Arbor and colleagues. The investigators evaluated the ability to predict traffic-related air pollution using a variety of methods and models, including a line source air pollution dispersion model and sophisticated spatiotemporal Bayesian data fusion methods. Exposure assessment for traffic-related air pollution is challenging because the pollutants are a complex mixture and vary greatly over space and time. Because extensive direct monitoring is difficult and expensive, a number of modeling approaches have been developed, but each model has its own limitations and errors.

Dr. …

Accounting For The Uncertainty Due To Chemicals Below The Detection Limit In Mixture Analysis, Paul M. Hargarten

Theses and Dissertations

Humans are exposed to multiple chemicals every day. Epidemiological studies have shown that chemical mixtures are associated with cancers, allergies, neurodevelopmental disorders, and other adverse health effects. To assess these associations, investigators are increasingly using chemical mixture approaches like weighted quantile sum (WQS) regression. In these studies, the research objectives are to determine whether a mixture of correlated chemicals is associated with an adverse health outcome and to identify the important chemicals. However, as experimental equipment measures each exposure to a chemical-specific detection limit, the exposures are unknown between zero and the detection limit. Indeed, the number of exposures below …

How Machine Learning And Probability Concepts Can Improve Nba Player Evaluation, Harrison Miller

CMC Senior Theses

In this paper I will be breaking down a scholarly article, written by Sameer K. Deshpande and Shane T. Jensen, that proposed a new method to evaluate NBA players. The NBA is the highest level professional basketball league in America and stands for the National Basketball Association. They proposed to build a model that would result in how NBA players impact their teams chances of winning a game, using machine learning and probability concepts. I preface that by diving into these concepts and their mathematical backgrounds. These concepts include building a linear model using ordinary least squares method, the bias …

Evaluation Of Modern Missing Data Handling Methods For Coefficient Alpha, Katerina Matysova

College of Education and Human Sciences: Dissertations, Theses, and Student Research

When assessing a certain characteristic or trait using a multiple item measure, quality of that measure can be assessed by examining the reliability. To avoid multiple time points, reliability can be represented by internal consistency, which is most commonly calculated using Cronbach’s coefficient alpha. Almost every time human participants are involved in research, there is missing data involved. Missing data means that even though complete data were expected to be collected, some data are missing. Missing data can follow different patterns as well as be the result of different mechanisms. One traditional way to deal with missing data is listwise …

Modelling Weighted Signed Networks, Alberto Caimo, Isabella Gollini

Conference papers

In this paper we introduce a new modelling approach to analyse weighted signed networks by assuming that their generative process consists of two models: the interaction model which describes the overall connectivity structure of the relations in the network without taking into account neither the weight nor the sign of the dyadic relations; and the conditional weighted signed network model describes how the edge signed weights form given the interaction structure. We then show how this modelling approach can facilitate the interpretation of the overall network process. Finally, we adopt a Bayesian inferential approach to illustrate the new methodology by …

Advances In Measurement Error Modeling, Linh Nghiem

Statistical Science Theses and Dissertations

Measurement error in observations is widely known to cause bias and a loss of power when fitting statistical models, particularly when studying distribution shape or the relationship between an outcome and a variable of interest. Most existing correction methods in the literature require strong assumptions about the distribution of the measurement error, or rely on ancillary data which is not always available. This limits the applicability of these methods in many situations. Furthermore, new correction approaches are also needed for high-dimensional settings, where the presence of measurement error in the covariates adds another level of complexity to the desirable structure …

Visualization And Machine Learning Techniques For Nasa’S Em-1 Big Data Problem, Antonio P. Garza Iii, Jose Quinonez, Misael Santana, Nibhrat Lohia

SMU Data Science Review

In this paper, we help NASA solve three Exploration Mission-1 (EM-1) challenges: data storage, computation time, and visualization of complex data. NASA is studying one year of trajectory data to determine available launch opportunities (about 90TBs of data). We improve data storage by introducing a cloud-based solution that provides elasticity and server upgrades. This migration will save $120k in infrastructure costs every four years, and potentially avoid schedule slips. Additionally, it increases computational efficiency by 125%. We further enhance computation via machine learning techniques that use the classic orbital elements to predict valid trajectories. Our machine learning model decreases trajectory …

Unified Methods For Feature Selection In Large-Scale Genomic Studies With Censored Survival Outcomes, Lauren Spirko-Burns, Karthik Devarajan

COBRA Preprint Series

One of the major goals in large-scale genomic studies is to identify genes with a prognostic impact on time-to-event outcomes which provide insight into the disease's process. With rapid developments in high-throughput genomic technologies in the past two decades, the scientific community is able to monitor the expression levels of tens of thousands of genes and proteins resulting in enormous data sets where the number of genomic features is far greater than the number of subjects. Methods based on univariate Cox regression are often used to select genomic features related to survival outcome; however, the Cox model assumes proportional hazards …

Neural Shrubs: Using Neural Networks To Improve Decision Trees, Kyle Caudle, Randy Hoover, Aaron Alphonsus

SDSU Data Science Symposium

Decision trees are a method commonly used in machine learning to either predict a categorical response or a continuous response variable. Once the tree partitions the space, the response is either determined by the majority vote – classification trees, or by averaging the response values – regression trees. This research builds a standard regression tree and then instead of averaging the responses, we train a neural network to determine the response value. We have found that our approach typically increases the predicative capability of the decision tree. We have 2 demonstrations of this approach that we wish to present as …

Missing Data Augmentation For Bayesian Multiplex Ergms, Robert Krause, Alberto Caimo

Conference papers

In this paper we present an estimation algorithm for Bayesian multiplex exponential random graphs (BmERGMs) under missing net- work data. Social actors are often connected with more than one type of relation, thus forming a multiplex network. It is important to consider these multiplex structures simultaneously when analyzing a multiplex network. The importance of proper models of multiplex network structures is even more pronounced under the issue of missing network data. The proposed algorithm is able to estimate BmERGMs under missing data and can be used to obtain proper multiple imputations for multiplex network structures. It is an extension of …

Controlling For Confounding Via Propensity Score Methods Can Result In Biased Estimation Of The Conditional Auc: A Simulation Study, Hadiza I. Galadima, Donna K. Mcclish

Community & Environmental Health Faculty Publications

In the medical literature, there has been an increased interest in evaluating association between exposure and outcomes using nonrandomized observational studies. However, because assignments to exposure are not random in observational studies, comparisons of outcomes between exposed and nonexposed subjects must account for the effect of confounders. Propensity score methods have been widely used to control for confounding, when estimating exposure effect. Previous studies have shown that conditioning on the propensity score results in biased estimation of conditional odds ratio and hazard ratio. However, research is lacking on the performance of propensity score methods for covariate adjustment when estimating the …