Mendelian randomization accounting for complex correlated horizontal pleiotropy while elucidating shared genetic etiology

Qing Cheng, Xiao Zhang, Lin S. Chen () and Jin Liu ()
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Qing Cheng: Southwestern University of Finance and Economics
Xiao Zhang: Duke-NUS Medical School
Lin S. Chen: The University of Chicago
Jin Liu: Duke-NUS Medical School

Nature Communications, 2022, vol. 13, issue 1, 1-13

Abstract: Abstract Mendelian randomization (MR) harnesses genetic variants as instrumental variables (IVs) to study the causal effect of exposure on outcome using summary statistics from genome-wide association studies. Classic MR assumptions are violated when IVs are associated with unmeasured confounders, i.e., when correlated horizontal pleiotropy (CHP) arises. Such confounders could be a shared gene or inter-connected pathways underlying exposure and outcome. We propose MR-CUE (MR with Correlated horizontal pleiotropy Unraveling shared Etiology and confounding), for estimating causal effect while identifying IVs with CHP and accounting for estimation uncertainty. For those IVs, we map their cis-associated genes and enriched pathways to inform shared genetic etiology underlying exposure and outcome. We apply MR-CUE to study the effects of interleukin 6 on multiple traits/diseases and identify several S100 genes involved in shared genetic etiology. We assess the effects of multiple exposures on type 2 diabetes across European and East Asian populations.

Date: 2022
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Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-34164-1

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DOI: 10.1038/s41467-022-34164-1

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