The PPLD has advantages over conventional regression methods in application to moderately sized genome-wide association studies

Autor: Veronica J. Vieland, Sang-Cheol Seok
Rok vydání: 2021
Předmět:
Heredity
Time Factors
Genetic Linkage
Computer science
Single Nucleotide Polymorphisms
Gwas data
Normal Distribution
Genome-wide association study
Duchenne Muscular Dystrophy
computer.software_genre
Muscular Dystrophies
Linkage Disequilibrium
Medical Conditions
Gene Frequency
Medicine and Health Sciences
Statistic
Multidisciplinary
Simulation and Modeling
Genomics
Genome Scans
Regression
Neurology
X-Linked Traits
Sex Linkage
Physical Sciences
Regression Analysis
Medicine
Research Article
Science
Context (language use)
Research and Analysis Methods
Machine learning
Small data sets
Genome-Wide Association Studies
Genetics
Humans
Computer Simulation
Probability
Proportional Hazards Models
Clinical Genetics
Proportional hazards model
business.industry
Biology and Life Sciences
Computational Biology
Reproducibility of Results
Human Genetics
Genome Analysis
Probability Theory
Probability Distribution
Sample size determination
Sample Size
Epistasis
Artificial intelligence
business
computer
Mathematics
Genome-Wide Association Study
Zdroj: PLoS ONE, Vol 16, Iss 9, p e0257164 (2021)
PLoS ONE
Popis: SummaryIn earlier work, we have developed and evaluated an alternative approach to the analysis of GWAS data, based on a statistic called the PPLD. More recently, motivated by a GWAS for genetic modifiers of the X-linked Mendelian disorder Duchenne Muscular Dystrophy (DMD), we adapted the PPLD for application to time-to-event (TE) phenotypes. Because DMD itself is relatively rare, this is a setting in which the very large sample sizes generally assembled for GWAS are simply not attainable. For this reason, statistical methods specially adapted for use in small data sets are required. Here we explore the behavior of the TE-PPLD via simulations, comparing the TE-PPLD with Cox Proportional Hazards analysis in the context of small to moderate sample sizes. Our results will help to inform our approach to the DMD study going forward, and they illustrate several respects in which the TE-PPLD, and by extension the original PPLD, offer advantages over regression-based approaches to GWAS in this context.
Databáze: OpenAIRE
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