Biostatistics Commons^™

Combating Acquired Resistance To Mapk Inhibitors In Melanoma By Targeting Abl1/2-Mediated Reactivation Of Mek/Erk/Myc Signaling, Rakshamani Tripathi, Zulong Liu, Aditi Jain, Anastasia Lyon, Christina Meeks, Dana Richards, Jinpeng Liu, Daheng He, Chi Wang, Marika Nespi, Andrey Rymar, Peng Wang, Melissa Wilson, Rina Plattner

Pharmacology and Nutritional Sciences Faculty Publications

Metastatic melanoma remains an incurable disease for many patients due to the limited success of targeted and immunotherapies. BRAF and MEK inhibitors reduce metastatic burden for patients with melanomas harboring BRAF mutations; however, most eventually relapse due to acquired resistance. Here, we demonstrate that ABL1/2 kinase activities and/or expression are potentiated in cell lines and patient samples following resistance, and ABL1/2 drive BRAF and BRAF/MEK inhibitor resistance by inducing reactivation of MEK/ERK/MYC signaling. Silencing/inhibiting ABL1/2 blocks pathway reactivation, and resensitizes resistant cells to BRAF/MEK inhibitors, whereas expression of constitutively active ABL1/2 is sufficient to promote resistance. Significantly, nilotinib (2nd generation …

Association Between Dietary Inflammatory Index And Type 2 Diabetes Mellitus In Xinjiang Uyghur Autonomous Region, China, Wenhui Fu, Hualian Pei, Nitin Shivaooa, James R. Hébert, Tao Luo, Tian Tian, Dilibaier Alimu, Zewen Zhang, Jianghong Dai

Faculty Publications

Background Diet and inflammation have both been studied in relation to type 2 diabetes mellitus (T2DM). The aim of this cross-sectional study was to examine the association between the Dietary Inflammatory Index (DII®) and T2DM. Methods Subjects were adults enrolled in the baseline study of the Xinjiang multi-ethnic natural population cohort and health follow-up study from January to May 2019. The study involved 5,105 subjects (58.7% men) between 35 and 74 years of age. The DII score was calculated from a data obtained via a food frequency questionnaire consisting of 127 food items. Results Logistic regression analyses were used to …

Age-Related Losses In Cardiac Autonomic Activity During A Daytime Nap, Pin-Chun Chen, Negin Sattari, Lauren N. Whitehurst, Sara C. Mednick

Psychology Faculty Publications

In healthy, young individuals, a reduction in cardiovascular output and a shift from sympathetic to parasympathetic (vagal) dominance is observed from wake into stages of nocturnal and daytime sleep. This cardiac autonomic profile, measured by heart rate variability (HRV), has been associated with significant benefits for cardiovascular health. Aging is associated with decreased nighttime sleep quality and lower parasympathetic activity during both sleep and resting. However, it is not known whether age-related dampening of HRV extends to daytime sleep, diminishing the cardiovascular benefits of naps in the elderly. Here, we investigated this question by comparing the autonomic activity profile between …

Incorporation And Measurement Of Uncertainty In Clustered And Spatial Data, Yuan Hong

Theses and Dissertations

Analyzing population representative datasets for local estimation and predictions over time is important for monitoring related public health issues, however, there are many statistical challenges associated with such analyses. Mixed effect models are one of the common options which can incorporate time and spatial effect in the model and related inference is well established.

In the first part of this dissertation, to estimate area-level prevalence using individuallevel data, small area estimation (SAE) with post-stratified mixed effect models were used where sampling weights were also incorporated into it. However, if poststratification which requires more computation effort can improve estimation accuracy is …

Contrasting Cumulative Risk And Multiple Individual Risk Models Of The Relationship Between Adverse Childhood Experiences (Aces) And Adult Health Outcomes, Marianna Lanoue, Brandon George, Deborah L Helitzer, Scott W Keith

College of Population Health Faculty Papers

BACKGROUND: A very large body of research documents relationships between self-reported Adverse Childhood Experiences (srACEs) and adult health outcomes. Despite multiple assessment tools that use the same or similar questions, there is a great deal of inconsistency in the operationalization of self-reported childhood adversity for use as a predictor variable. Alternative conceptual models are rarely used and very limited evidence directly contrasts conceptual models to each other. Also, while a cumulative numeric 'ACE Score' is normative, there are differences in the way it is calculated and used in statistical models. We investigated differences in model fit and performance between the …

Call To Action: Sars-Cov-2 And Cerebrovascular Disorders (Cascade), Shahram Abootalebi, Benjamin M. Aertker, Mohammad Sobhan Andalibi, Negar Asdaghi, Ozlem Aykac, M. Reza Azarpazhooh, M. Cecilia Bahit, Kristian Barlinn, Hamidon Basri, Reza Bavarsad Shahripour, Anna Bersano, Jose Biller, Afshin Borhani-Haghighi, Robert D. Brown, Bruce Cv Campbell, Salvador Cruz-Flores, Deidre Anne De Silva, Mario Di Napoli, Afshin A. Divani, Randall C. Edgell, Johanna T. Fifi, Abdoreza Ghoreishi, Teruyuki Hirano, Keun Sik Hong, Chung Y. Hsu, Josephine F. Huang, Manabu Inoue, Amanda L. Jagolino, Moira Kapral, Hoo Fan Kee, Zafer Keser, Rakesh Khatri

Epidemiology and Biostatistics Publications

Background and purpose: The novel severe acute respiratory syndrome coronavirus 2 (SARS-Cov-2), now named coronavirus disease 2019 (COVID-19), may change the risk of stroke through an enhanced systemic inflammatory response, hypercoagulable state, and endothelial damage in the cerebrovascular system. Moreover, due to the current pandemic, some countries have prioritized health resources towards COVID-19 management, making it more challenging to appropriately care for other potentially disabling and fatal diseases such as stroke. The aim of this study is to identify and describe changes in stroke epidemiological trends before, during, and after the COVID-19 pandemic. Methods: This is an international, multicenter, hospital-based …

Machine Learning Applications For Drug Repurposing, Hansaim Lim

Dissertations, Theses, and Capstone Projects

The cost of bringing a drug to market is astounding and the failure rate is intimidating. Drug discovery has been of limited success under the conventional reductionist model of one-drug-one-gene-one-disease paradigm, where a single disease-associated gene is identified and a molecular binder to the specific target is subsequently designed. Under the simplistic paradigm of drug discovery, a drug molecule is assumed to interact only with the intended on-target. However, small molecular drugs often interact with multiple targets, and those off-target interactions are not considered under the conventional paradigm. As a result, drug-induced side effects and adverse reactions are often neglected …

Physiological Factors And Physical Activity Contribute To The Incidence Of Type 2 Diabetes Mellitus In Indonesia, Demsa Simbolon, Afriyana Siregar, Ruzita Abd Talib

Kesmas

Type 2 diabetes mellitus (T2DM) is the sixth highest cause of death in Indonesia. Thus, it must be prevented and overcome with appropriate management. This study aimed to determine the contribution of physiological factors and physical activities to the incidence of T2DM. The study used a cohort retrospective design using secondary data from the Indonesian Family Life Survey (IFLS) from 2007 to 2014, which included a sample of 14,517 people involved for more than 20 years. Data analysis was performed using multiple logistic regressions. The results revealed a 3.8% incidence of T2DM in Indonesia. Record of hypertension risk increased the …

Evaluation Of Anthropometric Parameters Of Central Obesity Among Professional Drivers: A Receiver Operating Characteristic Analysis, Muhammad Asif, Muhammad Aslam, Saima Altaf, Abdul Majid, Saima Atif

Kesmas

Different anthropometric parameters have been proposed for assessing central obesity. The diagnostic performance of these anthropometric parameters and their ability to correctly measure central obesity for the professional community, like drivers, is questionable and needs to be assessed. The study aimed to examine the diagnostic performance of anthropometric parameters as indicators of central obesity in drivers as measured by waist circumference (WC) and to determine the best cut-off values for these parameters that would identify obese drivers. Anthropometric measurements from a cross-sectional sample of 197 professional drivers were taken under standard protocol. Receiver operating characteristics (ROC) analysis was used to …

Gerakan Nusantara Program On Children’S Nutrition Practices, Syilga Cahya Gemily, Sandra Fikawati, Ahmad Syafiq

Kesmas

Gerakan Nusantara is a nutrition education program that aims to change the nutrition knowledge, attitudes, and practices of elementary school children in Indonesia. The program was implemented in 2015–2018 in Jakarta, Bandung, Surabaya, Makassar, Medan, Yogyakarta, Pontianak, East Nusa Tenggara, Pekanbaru, Padang, Jambi, and Sorong. The present study sought to determine the effects of Gerakan Nusantara on the nutrition practices of school-aged children and describe the extent of changes in each nutrition practice component covered by the program. This study used secondary data on Nutrition and Health Knowledge, Attitudes, and Practices studies collected from students participating in the program and …

Vitamin D And Reduced Academic Stress Of Health Students, Yuni Kusmiyati, Emy Suryani, Lucky Herawati, Amalia Firdausi

Kesmas

Stress conditions can reduce academic ability, influencing student grade point averages and encouraging negative behaviors. The object of this research was to discern the influence of vitamin D in the reduction of academic stress of health students. The study used a randomized controlled trial (RCT). The population was midwifery students who lived in the Health Polytechnic dormitory, Ministry of Health, Yogyakarta, in 2017. Samples were 77 students of midwifery who did not suffer from any chronic disease, nor did they experience academic stress. They all agreed to become research subjects. Samples were 39 respondents in a treatment group who were …

Family Planning Communication Between Wives And Husbands: Insights From The 2017 Indonesia Demographic And Health Survey, Dian Kristiani Irawaty, Suziana Mat Yasin, Hadi Pratomo

Kesmas

Frequent inter-spousal communication is regarded as an indicator of safe family planning practice. Nevertheless, communication about family planning within couples in Indonesia is still largely unexplored. This study assessed the levels of inter-spousal communication about family planning and its associated determinants, using cross-sectional and nationally representative data from the 2017 Indonesia Demographic and Health Survey (IDHS), from a randomly selected cohort of 8,925 currently-married couples. Data on sociodemographic characteristics, inter-spousal communication behaviors, and attitudes regarding family planning were collected. The dependent variable in this study is how frequently couples discuss family planning, based on wives’ responses. The analyses were stratified …

Education Through Whatsapp Media In Changing Of Smoking Behavior Among Senior High School Students, Yusriani Yusriani, Joel Rey U. Acob

Kesmas

Teenagers, who are considerably susceptible to smoking, must be educated to prevent smoking behavior that can cause health problems and even death. The aim of this study was to assess the effect of education through social media such as WhatsApp in the modification of smoking behaviors among senior high school students in Pangkep District, Indonesia. It employed a quasi-experimental, pretest-posttest-only control group design. The experimental group received education in the use of WhatsApp social media, while the control group was provided with leaflets. Data were collected through observation and interviews with a total of 180 students in both groups, with …

Effect Of The Covid-19 Pandemic On Eating Habits And Food Purchasing Behaviors Of University Students, Hacı Ömer Yilmaz, Ramazan Aslan, Cihan Unal

Kesmas

COVID-19 disease, which spread rapidly all over the world after the first case was detected, became the primary agenda of the countries. Radical measures have been taken by governments to prevent the spread of the disease. Precautions and warnings to prevent disease caused some changes on daily life activities of people. University students who have to stop education are among the groups most affected by this disease sociologically, psychologically and physiologically. The aim of this study was planned and conducted to determine the effect of COVID-19 on university students' eating habits and food purchasing behavior. The study was completed with …

Relationship Between Spirituality And Acceptance Of Illness Level In Bipolar Patients, Olga Putri Atsira, Erikavitri Yuliati, Atika Atika, Abdurachman Abdurachman, Margarita Maria Maramis

Kesmas

Bipolar disorder is a chronic mental condition that affects patients’ quality of life. The management process is affected by acceptance of illness. The ability to accept the illness is related to the spirituality level which is something that is held strongly by Indonesian people. There has been very little research related to the relationship between spirituality with bipolar disorder. This study aimed to analyze relationship between spirituality levels with acceptance of illness in patients with bipolar disorder. This study is a correlational study using questionnaire from bipolar disorder patients contacted through Harmony in Diversity online community as a sample. Samples …

Compressed Dna Representation For Efficient Amr Classification, John Partee, Robert Hazell, Anjli Solsi, John Santerre

SMU Data Science Review

In this paper, we explore a representation methodology for the compression of DNA isolates. Using lossless string compression via tokenization of frequently repeated segments of DNA, we reduce the length of the isolates to be counted as k-mers for classification. With this new representation, we apply a previously established feature sampling method to dramatically reduce the feature space. In understanding the genetic diversity, we also look at conserving biological function across these spaces. Using a random forest model we were able to predict the resistance or susceptibility of bacteria with 85-90\% accuracy, with a 30-50\% reduction in overall isolate length, …

A Differential Geometry-Based Machine Learning Algorithm For The Brain Age Problem, Justin Asher, Khoa Tan Dang, Maxwell Masters

The Journal of Purdue Undergraduate Research

No abstract provided.

Robust Inference On Effects Attributable To Mediators: A Controlled-Direct-Effect-Based Approach For Causal Effect Decomposition With Multiple Mediators, An-Shun Tai, Yi-Juan Du, Sheng-Hsuan Lin

Harvard University Biostatistics Working Paper Series

Effect decomposition is a critical technique for mechanism investigation in settings with multiple causally ordered mediators. Causal mediation analysis is a standard method for effect decomposition, but the assumptions required for the identification process are extremely strong. By extending the framework of controlled direct effects, this study proposes the effect attributable to mediators (EAM) as a novel measure for effect decomposition. For policy making, EAM represents how much an effect can be eliminated by setting mediators to certain values. From the perspective of mechanism investigation, EAM contains information about how much a particular mediator or set of mediators is involved …

Interplay Of Trna-Derived Fragments And T Cell Activation In Breast Cancer Patient Survival, Nayang Shan, Ningshan Li, Qile Dai, Lin Hou, Xiting Yan, Amei Amei, Lingeng Lu, Zuoheng Wang

Mathematical Sciences Faculty Research

Effector CD8+ T cell activation and its cytotoxic function are positively correlated with improved survival in breast cancer. tRNA-derived fragments (tRFs) have recently been found to be involved in gene regulation in cancer progression. However, it is unclear how interactions between expression of tRFs and T cell activation affect breast cancer patient survival. We used Kaplan–Meier survival and multivariate Cox regression models to evaluate the effect of interactions between expression of tRFs and T cell activation on survival in 1081 breast cancer patients. Spearman correlation analysis and weighted gene co-expression network analysis were conducted to identify genes and pathways that …

The Influence Of Environmental Variables On The Height Growth Of Loblolly Pine (Pinus Taeda) In The Western Gulf, Osakpamwan Edo-Iyasere

Electronic Theses and Dissertations

Understanding the effects of environmental factors on stand growth is important in optimizing forest management plans. This study investigated the effects of soil and climate factors on the height growth (site index) of loblolly pine (Pinus Taeda L.) using data collected from permanent plots established in intensively-managed plantations across East Texas and Western Louisiana. The Chapman-Richards model was selected as the base model to describe the height-age relationships and important soil and climate variables were incorporated into the models as model parameter coefficient adjustors. Our results showed that the most important factors for predicting site index were nitrogen …

Risk Of New Bloodstream Infections And Mortality Among People Who Inject Drugs With Infective Endocarditis., Charlie Tan, Esfandiar Shojaei, Joshua C. Wiener, Meera Shah, Sharon Koivu, Michael Silverman

Epidemiology and Biostatistics Publications

IMPORTANCE: People who inject drugs (PWID) who are being treated for infective endocarditis remain at risk of new bloodstream infections (BSIs) due to ongoing intravenous drug use (IVDU).

OBJECTIVES: To characterize new BSIs in PWID receiving treatment for infective endocarditis, to determine the clinical factors associated with their development, and to determine whether new BSIs and treatment setting are associated with mortality.

DESIGN, SETTING, AND PARTICIPANTS: This retrospective cohort study was performed at 3 tertiary care hospitals in London, Ontario, Canada, from April 1, 2007, to March 31, 2018. Participants included a consecutive sample of all PWID 18 years or …

The Impact Of Improved Access To After-Hours Primary Care On Emergency Department And Primary Care Utilization: A Systematic Review., Michael Hong, Amardeep Thind, Gregory S Zaric, Sisira Sarma

Epidemiology and Biostatistics Publications

Access to after-hours primary care is problematic in many developed countries, leading patients to instead visit the emergency department for non-urgent conditions. However, emergency department utilization for conditions treatable in primary care settings may contribute to emergency department overcrowding and increased health system costs. This systematic review examines the impact of various initiatives by developed countries to improve access to after-hours primary care on emergency department and primary care utilization. We performed a systematic review on the impact of improved access to after-hours primary and searched CINAHL, EMBASE, MEDLINE, and Scopus. We identified 20 studies that examined the impact of …

A Novel Correction For The Adjusted Box-Pierce Test — New Risk Factors For Emergency Department Return Visits Within 72 Hours For Children With Respiratory Conditions — General Pediatric Model For Understanding And Predicting Prolonged Length Of Stay, Sidy Danioko

Computational and Data Sciences (PhD) Dissertations

This thesis represents the results of three research projects that underline the breadth and depth of my interests.

Firstly, I devoted some efforts to the well-known Box-Pierce goodness-of-fit tests for time series models which has been an important research topic over the last few decades. All previously proposed tests are focused on changes of the test statistics. Instead, I adopted a different approach that takes the best performing test and modifying the rejection region. Thus, I developed a semiparametric correction of the Adjusted Box-Pierce test that attains the best I error rates for all sample sizes and lags and outperforms …

Severe Acute Respiratory Syndrome Coronavirus 2 Transmission Potential, Iran, 2020, Kamalich Muniz-Rodriguez, Isaac Fung, Shayesteh R. Ferdosi, Sylvia Ofori, Yiseul Lee, Amna Tariq, Gerardo Chowell

Biostatistics, Epidemiology & Environmental Health Sciences: Faculty Publications

To determine the transmission potential of severe acute respiratory syndrome coronavirus 2 in Iran in 2020, we estimated the reproduction number as 4.4 (95% CI 3.9–4.9) by using a generalized growth model and 3.5 (95% CI 1.3–8.1) by using epidemic doubling time. The reproduction number decreased to 1.55 after social distancing interventions were implemented.

Linear Methods For Regression With Small Sample Sizes Relative To The Number Of Variables., Rajesh Sikder

Electronic Theses and Dissertations

In data sets where there are a small number of observations but a large number of variables observed for each observation, ordinary least squares estimation cannot be used for regression models. There are many alternative including stepwise regression, penalized methods such as ridge regression and the LASSO, and methods based on derived inputs such as principal components regression and partial least squares regression. In this thesis, these five methods are described. K-fold cross validation is also discussed as a way for determining regularization parameters for each method. The performance of these methods in estimation and prediction is also examined through …

Marginal Methods And Software For Clustered Data With Cluster- And Group-Size Informativeness., Mary Elizabeth Gregg

Electronic Theses and Dissertations

Clustered data result when observations have some natural organizational association. In such data, cluster size is defined as the number of observations belonging to a cluster. A phenomenon termed informative cluster size (ICS) occurs when observation outcomes vary in a systematic way related to the cluster size. An additional form of informativeness, termed informative within-cluster group size (IWCGS), arises when the distribution of group-defining categorical covariates within clusters similarly carries information related to outcomes. Standard methods for the marginal analysis of clustered data can produce biased estimates and inference when data have informativeness. A reweighting methodology has been developed that …

Activation Of Trpa1 Nociceptor Promotes Systemic Adult Mammalian Skin Regeneration, Jenny J. Wei, Hali S. Kim, Casey A. Spencer, Donna Brennan-Crispi, Ying Zheng, Nicolette M. Johnson, Misha Rosenbach, Christopher Miller, Denis H. Y. Leung, George Cotsarelis, Thomas H. Leung

Research Collection School Of Economics

Adult mammalian wounds, with rare exception, heal with fibrotic scars that severely disrupt tissue architecture and function. Regenerative medicine seeks methods to avoid scar formation and restore the original tissue structures. We show in three adult mouse models that pharmacologic activation of the nociceptor TRPA1 on cutaneous sensory neurons reduces scar formation and can also promote tissue regeneration. Local activation of TRPA1 induces tissue regeneration on distant untreated areas of injury, demonstrating a systemic effect. Activated TRPA1 stimulates local production of interleukin-23 (IL-23) by dermal dendritic cells, leading to activation of circulating dermal IL-17–producing γδ T cells. Genetic ablation of …

Pre-Testing Of The Who’S Educational Video: “How To Protect Yourself Against Covid-19”, Hilyatul Fadliyah, Manendra Muhtar, Munih Munih, Sylviasari Risgiantini, Weny Wulandary, Hadi Pratomo

Kesmas

The coronavirus disease 2019 (COVID-19) pandemic, caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) was declared a public health emergency in many countries, including Indonesia. The World Health Organization (WHO) released an educational video, entitled "How to Protect Yourself Against COVID-19", which explained how to prevent the spread of COVID-19. This study is a qualitative study that aims to pre-test this video, based on the Information, Education, Communication (IEC) theory, by analyzing teenagers’ perceptions of the video. The design used was a Rapid Assessment Procedure (RAP), and the data were collected by conducting in-depth interviews with participants, through …

Impact Of Lockdown In India: A Case Study Comparing Kanataka With International Model, Stelvin Sebastian, Aby Paul, Jeeva Joseph, Joel Joby, Sanjo Saijan, Jobin Kunjumon Vilapurathu

Kesmas

The COVID-19 was declared a pandemic and a global health emergency by WHO, prompting various countries to implement early and stringent social distancing protocols through lockdown, to flatten the epidemic curve. The objective of the present study was to assess the impacts and effectiveness of the lockdown protocol in Karnataka and Punjab, compared with the implementation of this method in Australia and the UK. This study involved the collection of data from different authorized databases, in two phases. The first phase included the time starting with the first-reported index case through the 14th day after the declaration of lockdown, for …

Review Of Trial Therapies And Treatment For Covid-19: Lessons For Indonesia, Halma Zahro Mukhlida, Hilma Hasro Maulida, Gunanti Khairunnisa, Margaretha Josephine Mantrono, Risky Kusuma Hartono, Rindu Rindu, Eka R W Purnamasari, Rizky Fajar Meirawan

Kesmas

The infectious disease from Coronavirus Disease 2019, or COVID-19, has quickly spread world-wide since 2019. Therapies for managing COVID-19 have yet to be confirmed as medication for the severe sickness that the disease may cause. This study aimed to review the previous research of the efficacy of trial therapy and treatment to the patients in the hospital with COVID-19. Using PRISMA guidelines as a method for conducting a systematic literature review, a total of 67 articles were collected from several online journal databases. Various therapies were found that are effective in the treatment and management of COVID-19. In accordance with …