A functional data analysis approach for genetic association studies
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Publication:2453682
Abstract: We present a new method based on Functional Data Analysis (FDA) for detecting associations between one or more scalar covariates and a longitudinal response, while correcting for other variables. Our methods exploit the temporal structure of longitudinal data in ways that are otherwise difficult with a multivariate approach. Our procedure, from an FDA perspective, is a departure from more established methods in two key aspects. First, the raw longitudinal phenotypes are assembled into functional trajectories prior to analysis. Second, we explore an association test that is not directly based on principal components. We instead focus on quantifying the reduction in variability as a means of detecting associations. Our procedure is motivated by longitudinal genome wide association studies and, in particular, the childhood asthma management program (CAMP) which explores the long term effects of daily asthma treatments. We conduct a simulation study to better understand the advantages (and/or disadvantages) of an FDA approach compared to a traditional multivariate one. We then apply our methodology to data coming from CAMP. We find a potentially new association with a SNP negatively affecting lung function. Furthermore, this SNP seems to have an interaction effect with one of the treatments.
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Cites work
- Computing the distribution of quadratic forms in normal variables
- Computing the distribution of quadratic forms: further comparisons between the Liu-Tang-Zhang approximation and exact methods
- Determining the order of the functional autoregressive model
- Estimation and inference in functional mixed-effects models
- Functional Data Analysis for Sparse Longitudinal Data
- Functional data analysis.
- scientific article; zbMATH DE number 2012927 (Why is no real title available?)
- Inferring stochastic dynamics from functional data
- Linear processes in function spaces. Theory and applications
- Nonparametric inference in small data sets of spatially indexed curves with application to ionospheric trend determination
- Properties of principal component methods for functional and longitudinal data analysis
- Statistical inferences for functional data
- Testing for lack of dependence in the functional linear model
- Testing Hypotheses in the Functional Linear Model
Cited in
(18)- Feature screening for time-varying coefficient models with ultrahigh-dimensional longitudinal data
- Set-based tests for genetic association in longitudinal studies
- Functional principal variance component testing for a genetic association study of HIV progression
- A joint design for functional data with application to scheduling ultrasound scans
- An association test for functional data based on Kendall's tau
- From multivariate to functional data analysis: fundamentals, recent developments, and emerging areas
- Dynamic partially functional linear regression model
- Functional data clustering via hypothesis testing \(k\)-means
- Flexible modelling of genetic effects on function-valued traits
- A geometric approach to confidence regions and bands for functional parameters
- A test of linearity in partial functional linear regression
- Gene level association analysis based on functional linear model
- The function-on-scalar LASSO with applications to longitudinal GWAS
- Minimax powerful functional analysis of covariance tests with application to longitudinal genome‐wide association studies
- 7. Categorical Data Analysis
- Fusion learning of functional linear regression with application to genotype-by-environment interaction studies
- Fast covariance estimation for multivariate sparse functional data
- Functional regression with repeated eigenvalues
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