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2014 ; 8
(1
): 176-203
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English Wikipedia
BAYESIAN METHODS FOR GENETIC ASSOCIATION ANALYSIS WITH HETEROGENEOUS SUBGROUPS:
FROM META-ANALYSES TO GENE-ENVIRONMENT INTERACTIONS
#MMPMID26413181
Wen X
; Stephens M
Ann Appl Stat
2014[]; 8
(1
): 176-203
PMID26413181
show ga
Genetic association analyses often involve data from multiple
potentially-heterogeneous subgroups. The expected amount of heterogeneity can
vary from modest (e.g. a typical meta-analysis), to large (e.g. a strong
gene-environment interaction). However, existing statistical tools are limited in
their ability to address such heterogeneity. Indeed, most genetic association
meta-analyses use a "fixed effects" analysis, which assumes no heterogeneity.
Here we develop and apply Bayesian association methods to address this problem.
These methods are easy to apply (in the simplest case, requiring only a point
estimate for the genetic effect, and its standard error, from each subgroup), and
effectively include standard frequentist meta-analysis methods, including the
usual "fixed effects" analysis, as special cases. We apply these tools to two
large genetic association studies: one a meta-analysis of genome-wide association
studies from the Global Lipids consortium, and the second a cross-population
analysis for expression quantitative trait loci (eQTLs). In the Global Lipids
data we find, perhaps surprisingly, that effects are generally quite homogeneous
across studies. In the eQTL study we find that eQTLs are generally shared among
different continental groups, and discuss consequences of this for study design.