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On Genetic Correlation Estimation With Summary Statistics From Genome-Wide Association Studies.
- Source :
-
Journal of the American Statistical Association . Mar2022, Vol. 117 Issue 537, p1-11. 11p. - Publication Year :
- 2022
-
Abstract
- Cross-trait polygenic risk score (PRS) method has gained popularity for assessing genetic correlation of complex traits using summary statistics from biobank-scale genome-wide association studies (GWAS). However, empirical evidence has shown a common bias phenomenon that highly significant cross-trait PRS can only account for a very small amount of genetic variance (R2 can be < 1 % ) in independent testing GWAS. The aim of this paper is to investigate and address the bias phenomenon of cross-trait PRS in numerous GWAS applications. We show that the estimated genetic correlation can be asymptotically biased toward zero. A consistent cross-trait PRS estimator is then proposed to correct such asymptotic bias. In addition, we investigate whether or not SNP screening by GWAS p-values can lead to improved estimation and show the effect of overlapping samples among GWAS. We analyze GWAS summary statistics of reaction time and brain structural magnetic resonance imaging-based features measured in the Pediatric Imaging, Neurocognition, and Genetics study. We find that the raw cross-trait PRS estimators heavily underestimate the genetic similarity between cognitive function and human brain structures (mean R 2 = 1.32 % ), whereas the bias-corrected estimators uncover the moderate degree of genetic overlap between these closely related heritable traits (mean R 2 = 22.42 % ). Supplementary materials for this article, including a standardized description of the materials available for reproducing the work, are available as an online supplement. [ABSTRACT FROM AUTHOR]
Details
- Language :
- English
- ISSN :
- 01621459
- Volume :
- 117
- Issue :
- 537
- Database :
- Academic Search Index
- Journal :
- Journal of the American Statistical Association
- Publication Type :
- Academic Journal
- Accession number :
- 155952319
- Full Text :
- https://doi.org/10.1080/01621459.2021.1906684