Digital Commons Network^™

Assembling Pharmacometric Datasets In R: The Puzzle Package, Mario González-Sales, Olivier Barrière, Pierre Olivier Tremblay, Guillaume Bonnefois, Julie Desrochers, Fahima Nekka

The R Journal

Pharmacometric analyses are integral components of the drug development process. The core of each pharmacometric analysis is a dataset. The time required to construct a pharmacometrics dataset can sometimes be higher than the effort required for the modeling per se. To simplify the process, the puzzle R package has been developed aimed at simplifying and facilitating the time consuming and error prone task of assembling pharmacometrics datasets.

Puzzle consist of a series of functions written in R. These functions create, from tabulated files, datasets that are compatible with the formatting requirements of the gold standard non-linear mixed effects modeling …

Rngforgpd: An R Package For Generation Of Univariate And Multivariate Generalized Poisson Data, Hesen Li, Hakan Demirtas, Ruizhe Chen

The R Journal

This article describes the R package RNGforGPD, which is designed for the generation of univariate and multivariate generalized Poisson data. Some illustrative examples are given, the utility and functionality of the package are demonstrated; and its performance is assessed via simulations that are devised around both artificial and real data.

Species Distribution Modeling Using Spatial Point Processes: A Case Study Of Sloth Occurrence In Costa Rica, Paula Moraga

The R Journal

Species distribution models are widely used in ecology for conservation management of species and their environments. This paper demonstrates how to fit a log-Gaussian Cox process model to predict the intensity of sloth occurrence in Costa Rica, and assess the effect of climatic factors on spatial patterns using the R-INLA package. Species occurrence data are retrieved using spocc, and spatial climatic variables are obtained with raster. Spatial data and results are manipulated and visualized by means of several packages such as raster and tmap. This paper provides an accessible illustration of spatial point process modeling that can …

Tulip: A Toolbox For Linear Discriminant Analysis With Penalties, Yuqing Pan, Qing Mai, Xin Zhang

The R Journal

Linear discriminant analysis (LDA) is a powerful tool in building classifiers with easy computation and interpretation. Recent advancements in science technology have led to the popularity of datasets with high dimensions, high orders and complicated structure. Such datasetes motivate the generalization of LDA in various research directions. The R package TULIP integrates several popular high-dimensional LDA-based methods and provides a comprehensive and user-friendly toolbox for linear, semi-parametric and tensor-variate classification. Functions are included for model fitting, cross validation and prediction. In addition, motivated by datasets with diverse sources of predictors, we further include functions for covariate adjustment. Our package is …

Testing The Equality Of Normal Distributed And Independent Groups’ Means Under Unequal Variances By Doex Package, Mustafa Cavus, Berna Yazıcı

The R Journal

In this paper, we present the doex package contains the tests for equality of normal distributed and independent group means under unequal variances such as Cochran F, Welch-Aspin, Welch, Box, Scott-Smith, Brown-Forsythe, Johansen F, Approximate F, Alexander-Govern, Generalized F, Modified Brown-Forsythe, Permutation F, Adjusted Welch, B2, Parametric Bootstrap, Fiducial Approach, and Alvandi Generalized F-test. Most of these tests are not available in any package. Thus, doex is easy to use for researchers in multidisciplinary studies. In this study, an extensive Monte-Carlo simulation study is conducted to investigate the performance of the the tests for equality of normal distributed group means …

News From The Bioconductor Project, Bioconductor Core Team

The R Journal

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor 3.12 was released on 28 October, 2020. It is compatible with R 4.0.3 and consists of 1974 software packages, 398 experiment data packages, 968 up-to-date annotation packages, and 28 workflows. Books are a new addition, built regularly from source and therefore fully reproducible; an example is the community-developed Orchestrating Single-Cell Analysis with Bioconductor.

Kuhn-Tucker And Multiple Discrete-Continuous Extreme Value Model Estimation And Simulation In R: The Rmdcev Package, Patrick Lloyd-Smith

The R Journal

This paper introduces the package rmdcev in R for estimation and simulation of KuhnTucker demand models with individual heterogeneity. The models supported by rmdcev are the multiple-discrete continuous extreme value (MDCEV) model and Kuhn-Tucker specification common in the environmental economics literature on recreation demand. Latent class and random parameters specifications can be implemented and the models are fit using maximum likelihood estimation or Bayesian estimation. The rmdcev package also implements demand forecasting and welfare calculation for policy simulation. The purpose of this paper is to describe the model estimation and simulation framework and to demonstrate the functionalities of rmdcev using …

Editorial, Michael J. Kane

The R Journal

On behalf of the editorial board, I am pleased to present Volume 12 Issue 2 of the R Journal. This is my third and final issue as the Editor-in-Chief. In the last year, we have made some substantial changes to the journal that I believe will continue to increase our capacity to support the growing data science and computational statistics communities, and continue to raise the visibility of the journal. In the last few months we recruited 10 Associate Editors and we are continuing the recruitment process. I’d like to publicly welcome our new Associate Editors, and thank each of …

Miwqs: Multiple Imputation Using Weighted Quantile Sum Regression, Paul M. Hargarten, David C. Wheeler

The R Journal

The miWQS package in the Comprehensive R Archive Network (CRAN) utilizes weighted quantile sum regression (WQS) in the multiple imputation (MI) framework. The data analyzed is a set/mixture of continuous and correlated components/chemicals that are reasonable to combine in an index and share a common outcome. These components are also interval-censored between zero and upper thresholds, or detection limits, which may differ among the components. This type of data is found in areas such as chemical epidemiological studies, sociology, and genomics. The miWQS package can be run using complete or incomplete data, which may be placed in the first quantile, …

Frames Of Error: Three Behavioral Approaches To Reducing Stigma Towards People With Disabilities, Rocco Giovanni Catrone

Dissertations

What makes a person disabled is a much-debated topic with some focusing on the individuals impairments (putting the onus of disability on the individual) while others focus on how the environment (both architectural and social) exacerbates an individual’s impairments and creates the conceptualization of disability (putting the onus of disability on society). No matter how a person with a disability (PWD) is categorized, they are met with healthcare, education, and work disparities that are perpetuated both unintentionally and intentionally. This paper examines the various ways disability and subsequently stigma arises from a variety of viewpoints both within and outside the …

Has The Pandemic Brought About A Healthier Lifestyle Among Adults?, Amirul Roslee

Introduction to Research Methods RSCH 202

This study is the first in Singapore to examine how the lockdown had an impact on lifestyle habits among adults above 18 years old in Singapore. The results were collected through an online survey consisting of 18 questions. Linear Regression is used to find the relation between healthier people and the variables. The data analysis determined whether significant differences exist between essential workers and non-essential workers. The proposed research will aim to gain a deeper understanding of the lifestyle changes affected by the lockdown mainly with regards to exercise, sleeping habits, and mode of working.

Talk The Talk, Freddy-May Abisamra, Natasha White

Goal 3: Interpersonal Intelligence Narrative

To give students practice having high-stakes conversations in a safe, controlled environment.

To give students an opportunity to verbalize what things they want/don’t want in relationships.

Global Solidarity, Global Worker Empowerment, And Global Strategy In The Anti-Sweatshop Movement, Matthew S. Williams

Sociology: Faculty Publications and Other Works

I explore the ideology of worker empowerment among U.S. anti-sweatshop activists, particularly United Students Against Sweatshops, and its strategic consequences for transnational campaigns. This ideology is central in shaping the movement’s transnational strategy and organization, fostering communication and accountability, particularly to organizations representing sweatshop workers. Such organizational choices, in turn, shape how transnational networks strategize. For example, the anti-sweatshop movement rarely uses the familiar tactic of boycotts, due to opposition from workers. The more empowered sweatshop workers in such networks, the more informed decisions their allies can make, and the more strategically effective the movement can be.

Salvage Of Failed Femoral Neck Fracture Fixation With Conversion Total Hip Arthroplasty Using The Direct Anterior Approach., Andrew G Yun, Marilena Qutami, Kory B Dylan Pasko

Articles, Abstracts, and Reports

Purpose: Failed femoral neck fracture (FNF) fixation with

Materials and Methods: Medical records for 42 patients with a prior history of FNF fixation who underwent conversion THA with hardware removal between 2009 and 2019 were retrospectively reviewed. Surgery was performed by a single surgeon at a single institution. All patients underwent hardware removal followed by direct anterior approach (DAA) THA using two separate incisions. Clinical outcomes, radiographic findings, and perioperative morbidity and mortality are reported.

Results: Clinically, there were no postoperative dislocations, periprosthetic fractures, or infections at follow-up. After a mean follow-up of 4 years, the mean hip disability and …

Pomalidomide, Dexamethasone, And Daratumumab In Relapsed Refractory Multiple Myeloma After Lenalidomide Treatment., David S Siegel, Gary J Schiller, Christy Samaras, Michael Sebag, Jesus Berdeja, Siddhartha Ganguly, Jeffrey Matous, Kevin Song, Christopher S Seet, Giampaolo Talamo, Mirelis Acosta-Rivera, Michael Bar, Donald Quick, Bertrand Anz, Gustavo Fonseca, Donna Reece, William E Pierceall, Weiyuan Chung, Faiza Zafar, Amit Agarwal, Nizar J Bahlis

Articles, Abstracts, and Reports

Patients with multiple myeloma who have relapsed after or become refractory to lenalidomide in early treatment lines represent a clinically important population in need of effective therapies. The safety and efficacy of pomalidomide, low-dose dexamethasone, and daratumumab was evaluated in lenalidomide-pretreated patients with relapsed or refractory multiple myeloma (RRMM) after one to two prior treatment lines in the phase 2 MM-014 study. Patients received pomalidomide 4 mg daily from days 1-21 and dexamethasone 40 mg weekly (28-day cycles). Daratumumab 16 mg/kg was administered per label. Primary endpoint was overall response rate (ORR); secondary endpoints included progression-free survival (PFS) and safety. …

New Beginnings., Jeffrey C Wang, Jens R Chapman, Karsten Wiechert

Articles, Abstracts, and Reports

No abstract provided.

Pledging Intellectual Property For Covid-19, Jorge L. Contreras

Utah Law Faculty Scholarship

COVID-19 differs from other recent public health crises with respect to its sudden onset, its rapid spread, the lack of any known vaccine or cure and resulting shortages of critical medical equipment. The convergence of these factors has prompted both governments and IPR holders around the world to seek ways to increase the availability of IPR necessary to combat the pandemic. Governmental compulsory licensing, IPR pools and voluntary IPR pledges have all been used in the past, though in situations that differ in important respects from the COVID-19 pandemic. Each is designed to result, to a greater or lesser degree, …

A Rare Case Of Idiopathic Pyometra In A Premenopausal Patient., Kristina M Mori, Howard D Epstein, Michael C Roossin, Bram H Goldstein

Articles, Abstracts, and Reports

Pyometra is a very uncommon disease principally occurring in postmenopausal women. It is characterized by the accumulation of purulent material within the uterine cavity. This paper presents the clinical history of a 35-year-old premenopausal woman with otherwise normal menstruation who developed heavy menstruation and was diagnosed with a benign pyometra of indeterminate etiology in March 2017. The patient underwent repeated ultrasound-guided drainage, dilation and curettage, and antibiotic therapy. Biopsies of the pelvic sidewall revealed endometriosis in June 2017. The heavy menstruation and suppurative fluid in the uterus of the patient persisted in which intramuscular leuprolide acetate was prescribed to address …

Syphilis Hepatitis Presenting As A Mimic Of Primary Biliary Cholangitis, Cody Kern, Ahmed Elmoursi, Caroline Blake, Andrew Hoellein

Internal Medicine Faculty Publications

Syphilis hepatitis is a rare cause of acute liver injury. Primary biliary cholangitis (PBC) is a progressive autoimmune disease characterized by the typical presentation of a cholestatic liver injury and the presence of antimitochondrial antibodies (AMAs). We present a case of syphilis hepatitis that presented as a mimic to PBC with positive AMA. The eradication of syphilis led to the resolution of the liver injury and down trending of the antibody level. We recommend excluding syphilis in patients with high-risk behaviors presenting with a cholestatic liver injury and positive AMA before the diagnosis of PBC.

The Population Council's Center For Biomedical Research: A Nonprofit Product-Development Entity, Population Council

Fact Sheets

No abstract provided.

New Mexico, Sharon T. Shaheen

Texas A&M Journal of Property Law

Under the Produced Water Act (“Act”) enacted in the 2019 regular legislative session, the New Mexico Legislature authorized the New Mexico Oil Conservation Division (“OCD”) and the New Mexico Water Quality Control Commission (“WQCC”) to regulate produced water resulting from oil and gas drilling or production. The Act governs the transportation and sale of produced water, recycled water (also referred to as recycled produced water), and treated water (also referred to as treated produced water).

Oregon, Eric L. Martin

Texas A&M Journal of Property Law

Even though no oil and only a small quantity of natural gas is produced in Oregon, the Oregon Legislature enacted bans in 2019 on hydraulic fracturing until 2025 and on using Oregon’s territorial sea for oil and gas activities. Beyond that legislation, though, legal developments in Oregon this year concerning the oil and gas industry focused on downstream issues.

Private Foundations: Keeping Themselves Rich While Giving Money Away, Jessica Leech

Social Work Theses - Archive

This paper examines the relational dynamics that maintain the imbalance between American private foundations and their grantees. Using conflict theory as a guide, the dynamics of power at play between the two entities is examined. These dynamics are analyzed through the history of philanthropy in the United States with a particular focus on the sector’s reaction to the 2008 financial crisis and the COVID-19 pandemic. Both international events led to an evolution of how many private foundations interact with grantees. A closer examination of American philanthropy’s response to the COVID-19 crisis specifically will be compared to the segment’s historical actions. …

Textile And Apparel Supply Chain During Covid 19: A Perspective From Bangladesh, Mohammad F. Ahsan

Major Papers by TMD Master of Science Students

The viral COVID-19 outbreak resulted in restricted movement of people and products. It followed one of the biggest recessions in the history of mankind. Apart from all other affected sectors, Textile and Apparel Supply Chain is in the most vulnerable position because of China is, the largest exporter of textile raw materials and was affected the most by the virus. An overall decrease in demand led to a substantial decrease in textile and apparel product manufacturing that ultimately shut down factories and laid off workers in Bangladesh, where four million people are employed in the sector. This paper illustrates the …

Develop And Standardize A Dot&Pf Statewide Airport Construction Specifications Updating Process, Virginia Corazon Groeschel

Student Projects for Graduate Degrees

This research study evaluates the operational performance of an experimental process model developed to provide a systematic and repeatable approach to updating the Alaska Department of Transportation and Public Facilities (DOT&PF) Statewide Standard Airport Construction (SSAC) specifications to comply with the Federal Aviation Administration’s (FAA’s) Advisory Circular (AC) 150/5370-10H – Standard Specifications for Construction of Airports, (10H). In order to develop and standardize an effective process within DOT&PF, this study must examine how a large government organization, like DOT&PF, implements change. This study also discusses which key Project Management Institute’s (PMI’s) knowledge areas provide the framework for initiating, planning, and …

How Peer Support Specialists Uniquely Initiate And Build Connection With Young People Experiencing Homelessness, James Erangey, Connor Marvin, Danielle Maude Littman, Meredith Mollica, Kimberly Bender, Tom Lucas, Tara Milligan

Graduate School of Social Work: Faculty Scholarship

Young people experiencing homelessness are often apprehensive to engage in conventional service systems due to prior mistreatment by providers and others in their lives, as well as stigma associated with accessing services. Even when relationships between service providers and young people are initiated, they often end prematurely. Mutual aid, or peer-to-peer support, has a long and promising history within the mental health field, yet has received little empirical attention in work with young people experiencing homelessness. The present study used participatory qualitative methods to understand how peers uniquely initiate and build connection with young people experiencing homelessness. Through interviews and …

Determining The Molecular Events Underlying The Role Of Estradiol In Mediating Sex Differences In Cocaine Reward., Saurabh Sanjeev Kokane

Psychology Dissertations - Archive

Research has demonstrated that women rapidly progress from recreational cocaine use to dependence, consume greater quantities of cocaine, experience more positive subjective effects of cocaine and have higher incidences of relapse during abstinence. These effects have been well replicated in animal models of cocaine addiction and indicate an enhanced sensitivity and therefore, vulnerability of females to cocaine addiction. This increased vulnerability of women and female animals to cocaine addiction has been attributed to enhanced cocaine reward. Furthermore, it has been demonstrated that the female hormone estradiol (E2) is a key mediator of the aforementioned effects of cocaine in women and …

The Pain In The Pleasure: Electrophysiological Analysis Of The Tail Region Of The Ventral Tegmental Area (Tvta), Akshay Parchure

Psychology Dissertations - Archive

The mesolimbic (midbrain) reward system is well documented to be involved with the analgesic effects of opioids, which involves the ventral tegmental area (VTA) causing release of dopamine (DA). The dopamine neurons from the ventral tegmental area (VTA) directly innervate the nucleus accumbens (NAc) and the prefrontal cortex via D1 DA Receptors. GABAergic inhibition of VTA DA system occurs regularly, but in 1990s Johnson and North showed the administration of opioids led to hyperpolarization of GABA interneurons in the VTA removing this inhibition, further leading to the “disinhibition model”. However, more recent studies have defined a new structure heavily influencing …

An Examination Of School Characteristics, Shooter Characteristics, And Incidental Characteristics Of School Mass Shootings, Amber Elizabeth O'Dell

Criminology & Criminal Justice Theses - Archive

School Mass Shootings (SMS) continue to be an ongoing issue for k-12 schools, technical/vocational schools, and on college campuses in the United States. Recent studies have shown that these crimes are increasing in both frequency and lethality. However, SMS are still considered to be statistically rare events making them difficult to study quantitatively. Many extant studies use an exclusive definition of SMS where an incident must have four or more deaths to be categorized as this type of crime. The present study utilizes an inclusive definition of 2 or more deaths, where every four injuries count as a death in …

Health Literacy, Illness Perception, And Diabetes Self-Management In Korean-Speaking Immigrants With Diabetes, Su Won Park

Nursing Dissertations - Archive

Type 2 diabetes mellitus (DM) is becoming an increasingly common disease with aging. As the prevalence of DM increases, the need for self-management is emphasized as a way to control DM and prevent its complications. According to the common-sense model, DM self-management is explained as an illness-related coping behavior that is affected by an individual's illness perception (IP). No studies were found that evaluated IP in Korean adults with DM in the United States, or that evaluated the association of health literacy (HL) with their IP and DM self-management. The purpose of this study was to examine the relationships between …