Physical Sciences and Mathematics Commons^™

Nonparametric Collective Spectral Density Estimation With An Application To Clustering The Brain Signals, Mehdi Maadooliat, Ying Sun, Tianbo Chen

Mathematics, Statistics and Computer Science Faculty Research and Publications

In this paper, we develop a method for the simultaneous estimation of spectral density functions (SDFs) for a collection of stationary time series that share some common features. Due to the similarities among the SDFs, the log‐SDF can be represented using a common set of basis functions. The basis shared by the collection of the log‐SDFs is estimated as a low‐dimensional manifold of a large space spanned by a prespecified rich basis. A collective estimation approach pools information and borrows strength across the SDFs to achieve better estimation efficiency. Moreover, each estimated spectral density has a concise representation using the …

Power In Pairs: Assessing The Statistical Value Of Paired Samples In Tests For Differential Expression, John R. Stevens, Jennifer S. Herrick, Roger K. Wolff, Martha L. Slattery

Mathematics and Statistics Faculty Publications

Background: When genomics researchers design a high-throughput study to test for differential expression, some biological systems and research questions provide opportunities to use paired samples from subjects, and researchers can plan for a certain proportion of subjects to have paired samples. We consider the effect of this paired samples proportion on the statistical power of the study, using characteristics of both count (RNA-Seq) and continuous (microarray) expression data from a colorectal cancer study.

Results: We demonstrate that a higher proportion of subjects with paired samples yields higher statistical power, for various total numbers of samples, and for various strengths of …

Earthquake Exposures And Mental Health Outcomes In Children And Adolescents From Phulpingdanda Village, Nepal: A Cross-Sectional Study, Jessica S. Schwind, Clara B. Formby, Susan L. Santangelo, Stephanie A. Norman, Rebecca Brown, Rebecca Hoffman Frances, Elisabeth Koss, Dibesh Karmacharya

Department of Biostatistics, Epidemiology, and Environmental Health Sciences Faculty Publications

Background

Mental health issues can reach epidemic proportions in developed countries after natural disasters, but research is needed to better understand the impact on children and adolescents in developing nations.

Methods

A cross-sectional study was performed to examine the relationship between earthquake exposures and depression, PTSD, and resilience among children and adolescents in Phulpingdanda village in Nepal, 1 year after the 2015 earthquakes, using the Depression Self-Rating Scale for Children, Child PTSD Symptom Scale, and the Child and Youth Resilience Measure, respectively. To quantify exposure, a basic demographic and household questionnaire, including an earthquake exposure assessment tool for children and …

Dichotomous Scoring Of Tdp-43 Proteinopathy From Specific Brain Regions In 27 Academic Research Centers: Associations With Alzheimer's Disease And Cerebrovascular Disease Pathologies, Yuriko Katsumata, David W. Fardo, Walter A. Kukull, Peter T. Nelson

Biostatistics Faculty Publications

TAR-DNA binding protein 43 (TDP-43) proteinopathy is a common brain pathology in elderly persons, but much remains to be learned about this high-morbidity condition. Published stage-based systems for operationalizing disease severity rely on the involvement (presence/absence) of pathology in specific anatomic regions. To examine the comorbidities associated with TDP-43 pathology in aged individuals, we studied data from the National Alzheimer’s Coordinating Center (NACC) Neuropathology Data Set. Data were analyzed from 929 included subjects with available TDP-43 pathology information, sourced from 27 different American Alzheimer’s Disease Centers (ADCs). Cases with relatively unusual diseases including autopsy-proven frontotemporal lobar degeneration (FTLD-TDP or FTLD-tau) …

Large-Scale Genome-Wide Meta-Analysis Of Polycystic Ovary Syndrome Suggests Shared Genetic Architecture For Different Diagnosis Criteria, Felix Day, Tugce Karaderi, Michelle R. Jones, Cindy Meun, Chunyan He, Alex Drong, Peter Kraft, Nan Lin, Hongyan Huang, Linda Broer, Reedik Magi, Richa Saxena, Triin Laisk, Margrit Urbanek, M. Geoffrey Hayes, Gudmar Thorleifsson, Juan Fernandez-Tajes, Anubha Mahajan, Benjamin H. Mullin, Bronwyn G. A. Stuckey, Timothy D. Spector, Scott G. Wilson, Mark O. Goodarzi, Lea Davis, Barbara Obermayer-Pietsch, André G. Uitterlinden, Verneri Anttila, Benjamin M. Neale, Marjo-Riitta Jarvelin, Bart Fauser

Internal Medicine Faculty Publications

Polycystic ovary syndrome (PCOS) is a disorder characterized by hyperandrogenism, ovulatory dysfunction and polycystic ovarian morphology. Affected women frequently have metabolic disturbances including insulin resistance and dysregulation of glucose homeostasis. PCOS is diagnosed with two different sets of diagnostic criteria, resulting in a phenotypic spectrum of PCOS cases. The genetic similarities between cases diagnosed based on the two criteria have been largely unknown. Previous studies in Chinese and European subjects have identified 16 loci associated with risk of PCOS. We report a fixed-effect, inverse-weighted-variance meta-analysis from 10,074 PCOS cases and 103,164 controls of European ancestry and characterisation of PCOS related …

Positive Association Between Dietary Inflammatory Index And The Risk Of Osteoporosis: Results From The Koges_Health Examinee (Hexa) Cohort Study, Hye Sun Kim, Cheongmin Sohn, Minji Kwon, Woori Na, Nitin Shivappa, James R. Hébert, Mi Kyung Kim

Faculty Publications

Previous studies have found that diet’s inflammatory potential is related to various diseases. However, little is known about its relationship with osteoporosis. The aim of this study was to investigate the association between the dietary inflammatory index (DII®) and osteoporosis risk in a large-scale prospective cohort study in Korea. This prospective cohort study included 159,846 participants (men 57,740; women 102,106) from South Korea with a mean follow-up of 7.9 years. The DII was calculated through a validated semi-quantitative FFQ (SQFFQ), and information on osteoporosis was self-reported by the participants. Analyses were performed by using a multivariable Cox proportional hazard model. …

Serum Nutrient Levels And Aging Effects On Periodontitis, Jeffrey L Ebersole, Joshua Lambert, Heather Bush, Pinar Emecen Huja, Arpita Basu

Biostatistics Faculty Publications

Periodontal disease damages tissues as a result of dysregulated host responses against the chronic bacterial biofilm insult and approximately 50% of US adults > 30 years old exhibit periodontitis. The association of five blood nutrients and periodontitis were evaluated due to our previous findings regarding a potential protective effect for these nutrients in periodontal disease derived from the US population sampled as part of the National Health and Nutrition Examination Survey (1999–2004). Data from over 15,000 subjects was analyzed for blood levels of cis-β-carotene, β-cryptoxanthin, folate, vitamin D, and vitamin E, linked with analysis of the presence and severity of periodontitis. …

Grammar And Variation: Understanding How Cis-Regulatory Information Is Encoded In Mammalian Genomes, Dana Michele King

Arts & Sciences Electronic Theses and Dissertations

Understanding how genotype leads to phenotype is key to understand both the development and dysfunction of complex organisms. In the context of regulating the gene expression patterns that contribute to cell identity and function, the goal of my thesis research is to how changes in genome sequence may impact impact gene expression by determining how sequence features contribute to regulatory potential. To accomplish this goal, I first leveraged the key regulatory role of pluripotency transcription factors (TFs) in mouse embryonic stem cells (mESCs) and tested synthetically generated and genomic identified combinations of binding site for four TFs, OCT4, SOX2, KLF4, …

Multiple Aneurysms Anatomy Challenge 2018 (Match): Phase I: Segmentation, Philipp Berg, Samuel Voß, Sylvia Saalfeld, Gábor Janiga, Aslak W. Bergersen, Kristian Valen-Sendstad, Jan Bruening, Leonid Goubergrits, Andreas Spuler, Nicole M. Cancelliere, David A. Steinman, Vitor M. Pereira, Tin Lok Chiu, Anderson Chun On Tsang, Bong Jae Chung, Juan R. Cebral, Salvatore Cito, Jordi Pallarès, Gabriele Copelli, Benjamin Csippa, György Paál, Soichiro Fujimura, Hiroyuki Takao, Simona Hodis, Georg Hille, Christof Karmonik, Saba Elias, Kerstin Kellermann, Muhammad Owais Khan, Alison L. Marsden

Department of Applied Mathematics and Statistics Faculty Scholarship and Creative Works

Purpose: Advanced morphology analysis and image-based hemodynamic simulations are increasingly used to assess the rupture risk of intracranial aneurysms (IAs). However, the accuracy of those results strongly depends on the quality of the vessel wall segmentation. Methods: To evaluate state-of-the-art segmentation approaches, the Multiple Aneurysms AnaTomy CHallenge (MATCH) was announced. Participants carried out segmentation in three anonymized 3D DSA datasets (left and right anterior, posterior circulation) of a patient harboring five IAs. Qualitative and quantitative inter-group comparisons were carried out with respect to aneurysm volumes and ostia. Further, over- and undersegmentation were evaluated based on highly resolved 2D images. Finally, …

Estimation Of The Parameters In A Spatial Regressive-Autoregressive Model Using Ord's Eigenvalue Method, Sajib Mahmud Mahmud Tonmoy

UNLV Theses, Dissertations, Professional Papers, and Capstones

In this thesis, we study one of Ord's (1975) global spatial regression models.

Ord considered spatial regressive-autoregressive models to describe the interaction

between location and a response variable in the presence of several covariates. He also

developed a practical estimation method for the parameters of this regression model

using the eigenvalues of a weight matrix that captures the contiguity of locations.

We review the theoretical aspects of his estimation method and implement it in the

statistical package R.

We also implement Ord's methods on the Columbus, Ohio, crime data set from the

year 1980, which involves the crime rate of …

Evaluating Rater Effects In The Context Of Ethical Reasoning Essay Assessment: An Application Of The Many-Facets Rasch Measurement Model, Madison A. Holzman

Dissertations, 2014-2019

Performance assessments are an often desired type of assessment due to their potential for alignment between the assessment and reality. However, due to the rater-mediated nature of scoring (Eckes, 2015), performance assessments have psychometric challenges that cannot be ignored in testing and assessment work. Specifically, performance assessment scores are prone to rater effects, or systematic differences in how raters evaluate performance assessment products (Myford & Wolfe, 2003). The purpose of this project was to evaluate ethical reasoning essay scores for rater effects. The Many-Facets Rasch Measurement (MFRM) model was used to evaluate ethical reasoning essay scores for rater leniency/severity effects, …

Subject Level Clustering Using A Negative Binomial Model For Small Transcriptomic Studies., Qian Li, Janelle R. Noel-Macdonnell, Devin C. Koestler, Ellen L. Goode, Brooke L. Fridley

Manuscripts, Articles, Book Chapters and Other Papers

BACKGROUND: Unsupervised clustering represents one of the most widely applied methods in analysis of high-throughput 'omics data. A variety of unsupervised model-based or parametric clustering methods and non-parametric clustering methods have been proposed for RNA-seq count data, most of which perform well for large samples, e.g. N ≥ 500. A common issue when analyzing limited samples of RNA-seq count data is that the data follows an over-dispersed distribution, and thus a Negative Binomial likelihood model is often used. Thus, we have developed a Negative Binomial model-based (NBMB) clustering approach for application to RNA-seq studies.

RESULTS: We have developed a Negative …

The Principal Problem With Principal Components Regression, Heidi Margaret Artigue, Heidi Margaret Artigue

Pomona Faculty Publications and Research

Principal components regression (PCR) reduces a large number of explanatory variables down to a small number of principal components. PCR is thought to be more useful, the more numerous the potential explanatory variables. The reality is that a large number of candidate explanatory variables does not make PCR more valuable; instead, it magnifies the failings of PCR.

Application Of Bradford’S Law Of Scattering On Research Publication In Astronomy & Astrophysics Of India, Satish Kumar, Senthilkumar R.

Library Philosophy and Practice (e-journal)

The present study is focused on examining the application of Bradford’s law of scattering on research articles published in the field of Astronomy & Astrophysics by Indian scientist during 1988-2017. The bibliographic data was retrieved from Web of Science (WoS) bibliographic data base for different period of time. Total 18,877 journal’s article have been published by Indian scientist in the field of Astronomy & Astrophysics during 1988-2017 which was further retrieved and analyzed separately for different blocks of 10 years as well as for 30 years consolidated too. The core journal of the field was identified. The Bradford law of …

A Proficient Two-Stage Stratified Randomized Response Strategy, Tanveer A. Tarray, Housila P. Singh

Journal of Modern Applied Statistical Methods

A stratified randomized response model based on R. Singh, Singh, Mangat, and Tracy (1995) improved two-stage randomized response strategy is proposed. It has an optimal allocation and large gain in precision. Conditions are obtained under which the proposed model is more efficient than R. Singh et al. (1995) and H. P. Singh and Tarray (2015) models. Numerical illustrations are also given in support of the present study.

A Logitudinal Feature Selection Method Identifies Relevant Genes To Distinguish Complicated Injury And Uncomplicated Injury Over Time, Suyan Tian, Chi Wang, Howard H. Chang

Biostatistics Faculty Publications

Background: Feature selection and gene set analysis are of increasing interest in the field of bioinformatics. While these two approaches have been developed for different purposes, we describe how some gene set analysis methods can be utilized to conduct feature selection.

Methods: We adopted a gene set analysis method, the significance analysis of microarray gene set reduction (SAMGSR) algorithm, to carry out feature selection for longitudinal gene expression data.

Results: Using a real-world application and simulated data, it is demonstrated that the proposed SAMGSR extension outperforms other relevant methods. In this study, we illustrate that a gene’s expression profiles over …

Re-Describing Surface Roughness, Vincent Wagner

Essential Studies UNDergraduate Showcase

The purpose of this project is to explore a non-traditional method of identifying and describing variance in data. The original goal was to provide a more useful description of surface roughness for use in calculating pressure loss due to pipe friction in the oil and gas industry. This approach uses simple trigonometric calculations to capture more information about the point to point variance of a given data set, as well as information related to the ratio of measured length vs total contact length. This method utilizes steps similar to the bootstrap method in statistics, however, rather than sampling a data …

Instances Of Influenza In The United States Visualized, Parth Patel

Publications and Research

The Tycho Project collects large data sets related to healthcare and in particular, instances and geographical information of diseases. We look at the instance counts and locations of Influenza from 1919-1951 across the United States. We hope to find seasonal and geographical insight to the spread of the disease.

Extended Method For Several Dichotomous Covariates To Estimate The Instantaneous Risk Function Of The Aalen Additive Model, Luciane Teixeira Passos Giarola, Mario Javier Ferrua Vivanco, Marcelo Angelo Cirillo, Fortunato Silva Menezes

Journal of Modern Applied Statistical Methods

The instantaneous risk function of Aalen’s model is estimated considering dichotomous covariates, using parametric accumulated risk functions to smooth cumulative risk of Aalen by grouping the individuals into sets named parcels. This methodology can be used for data with dichotomous covariates.

Simple Unbalanced Ranked Set Sampling For Mean Estimation Of Response Variable Of Developmental Programs, Girish Chandra, Dinesh S. Bhoj, Rajiv Pandey

Journal of Modern Applied Statistical Methods

An unbalanced ranked set sampling (RSS) procedure on the skewed survey variable is proposed to estimate the population mean of a response variable from the area of developmental programs which are generally implemented under different phases. It is based on the unbalanced RSS under linear impacts of the program and is compared with the estimators based on simple random sampling (SRS) and balanced RSS. It is shown that the relative precision of the proposed estimator is higher than those of the estimators based on SRS and balanced RSS for three chosen skewed distributions of survey variables.

A Generative Statistical Approach For Data Classification In A Biologically Inspired Design Tool, Marvin Manuel Arroyo Rujano

Graduate Theses and Dissertations

The objective of the research this thesis describes is to find a way to classify text-based descriptions of biological adaption to support Biologically Inspired design. Biologically inspired design is a fairly new field with ongoing research. There are different tools to assist designers and biologists in bio-inspired design. Some of the most common are BioTRIZ and AskNature. In recent years, more tools have been proposed to aid and make research in the field easier, for example, the Biologically Inspired Adaptive System Design (BIASD) tool. This tool was designed with the goal of helping designers in early design stages generate more …

Almost Periodic Functions In Quantum Calculus, Martin Bohner, Jaqueline Godoy Mesquita

Mathematics and Statistics Faculty Research & Creative Works

In this article, we introduce the concepts of Bochner and Bohr almost periodic functions in quantum calculus and show that both concepts are equivalent. Also, we present a correspondence between almost periodic functions defined in quantum calculus and N₀, proving several important properties for this class of functions. We investigate the existence of almost periodic solutions of linear and nonlinear q-difference equations. Finally, we provide some examples of almost periodic functions in quantum calculus.

Shoulder-Specific Patient Reported Outcome Measures For Use In Patients With Head And Neck Cancer:An Assessment Of Reliability, Construct Validity, And Overall Appropriateness Of Test Score Interpretation Using Rasch Analysis, Melissa Michelle Eden

Department of Physical Therapy Student Theses, Dissertations and Capstones

Context: Medical management for head and neck cancer (HNC) often includes neck dissection surgery, a side effect of which is shoulder dysfunction. There is no consensus for which patient-reported outcome measure (PRO) is most appropriate to quantify shoulder dysfunction in this population.

Objective: The aims of this research study were to: (1) use Rasch methodologies to assess construct validity and overall appropriateness of test score interpretation of Disability of the Arm, Shoulder and Hand (DASH), QuickDASH, Shoulder Pain and Disability Index (SPADI) and Neck Dissection Impairment Index (NDII) in the HNC population; (2) determine appropriateness of use of University of …

Rfviz: An Interactive Visualization Package For Random Forests In R, Christopher Beckett

All Graduate Plan B and other Reports, Spring 1920 to Spring 2023

Random forests are very popular tools for predictive analysis and data science. They work for both classification (where there is a categorical response variable) and regression (where the response is continuous). Random forests provide proximities, and both local and global measures of variable importance. However, these quantities require special tools to be effectively used to interpret the forest. Rfviz is a sophisticated interactive visualization package and toolkit in R, specially designed for interpreting the results of a random forest in a user-friendly way. Rfviz uses a recently developed R package (loon) from the Comprehensive R Archive Network (CRAN) to create …

Transient Solution Of An M/M/1 Retrial Queue With Reneging From Orbit, A. Azhagappan, E. Veeramani, W. Monica, K. Sonabharathi

Applications and Applied Mathematics: An International Journal (AAM)

In this paper, the transient behavior of an M/M/1 retrial queueing model is analyzed where the customers in the orbit possess the reneging behavior. There is no waiting room in the system for the arrivals. If the server is not free when the occurrence of an arrival, the arriving customer moves to the waiting group, known as orbit and retries for his service. If the server is idle when an arrival occurs (either coming from outside the queueing system or from the waiting group), the arrival immediately gets the service and leaves the system. Each individual customer in the orbit, …

Batch Arrival Bulk Service Queue With Unreliable Server, Second Optional Service, Two Different Vacations And Restricted Admissibility Policy, G. Ayyappan, R. Supraja

Applications and Applied Mathematics: An International Journal (AAM)

This paper is concerned with batch arrival queue with an additional second optional service to a batch of customers with dissimilar service rate where the idea of restricted admissibility of arriving batch of customers is also introduced. The server may take two different vacations (i) Emergency vacation-during service the server may go for vacation to an emergency call and after completion of the vacation, the server continues the remaining service to a batch of customers. (ii) Bernoulli vacation-after completion of first essential or second optional service, the server may take a vacation or may remain in the system to serve …

Some New Discretization Methods With Application In Reliability, Gholamhossein Yari, Zahra Tondpour

Applications and Applied Mathematics: An International Journal (AAM)

Deriving discrete analogues (Discretization) of continuous distributions has drawn attention of researchers, in recent decades. Discretization has been playing a key role in modeling life time data because in real world, most of original life time data are continuous while they are discrete in observation. In this paper, we introduce three new two-stage composite discretization methods to meet the need of fitting discrete-time reliability and survival data sets. All three proposed methods consist of two stages where using construction a new continuous random variable by underlying continuous random variable in the first stage and so based on maintaining hazard rate …

An M^X/G(A,B)/1 Queue With Breakdown And Delay Time To Two Phase Repair Under Multiple Vacation, G. Ayyappan, M. Nirmala

Applications and Applied Mathematics: An International Journal (AAM)

In this paper, we consider an M^x /G(a,b)/1 queue with active breakdown and delay time to two phase repair under multiple vacation policy. A batch of customers arrive according to a compound Poisson process. The server serves the customers according to the “General Bulk Service Rule” (GBSR) and the service time follows a general (arbitrary) distribution. The server is unreliable and it may breakdown at any instance. As the result of breakdown, the service is suspended, the server waits for the repair to start and this waiting time is called as „delay time‟ and is assumed to follow general …

Innate Immunity, The Hepatic Extracellular Matrix, And Liver Injury: Mathematical Modeling Of Metastatic Potential And Tumor Development In Alcoholic Liver Disease., Shanice V. Hudson

Electronic Theses and Dissertations

The overarching goals of the current work are to fill key gaps in the current understanding of alcohol consumption and the risk of metastasis to the liver. Considering the evidence this research group has compiled confirming that the hepatic matrisome responds dynamically to injury, an altered extracellular matrix (ECM) profile appears to be a key feature of pre-fibrotic inflammatory injury in the liver. This group has demonstrated that the hepatic ECM responds dynamically to alcohol exposure, in particular, sensitizing the liver to LPS-induced inflammatory damage. Although the study of alcohol in its role as a contributing factor to oncogenesis and …

Analysis Of Batch Arrival Bulk Service Queue With Multiple Vacation Closedown Essential And Optional Repair, G. Ayyappan, T. Deepa

Applications and Applied Mathematics: An International Journal (AAM)

The objective of this paper is to analyze an queueing model with multiple vacation, closedown, essential and optional repair. Whenever the queue size is less than , the server starts closedown and then goes to multiple vacation. This process continues until at least customer is waiting in the queue. Breakdown may occur with probability when the server is busy. After finishing a batch of service, if the server gets breakdown with a probability , the server will be sent for repair. After the completion of the first essential repair, the server is sent to the second optional repair with probability …