Integration of summary data from GWAS and eQTL studies predicts complex trait gene targets

Z. Zhu, F. Zhang, H. Hu, A. Bakshi, M.R. Robinson, J.E. Powell, G.W. Montgomery, M.E. Goddard, N.R. Wray, P.M. Visscher, J. Yang, Nature Genetics 48 (2016) 481–487.


Journal Article | Published | English
Author
Zhu, Zhihong; Zhang, Futao; Hu, Han; Bakshi, Andrew; Robinson, Matthew RichardIST Austria ; Powell, Joseph E; Montgomery, Grant W; Goddard, Michael E; Wray, Naomi R; Visscher, Peter M; Yang, Jian
Abstract
Genome-wide association studies (GWAS) have identified thousands of genetic variants associated with human complex traits. However, the genes or functional DNA elements through which these variants exert their effects on the traits are often unknown. We propose a method (called SMR) that integrates summary-level data from GWAS with data from expression quantitative trait locus (eQTL) studies to identify genes whose expression levels are associated with a complex trait because of pleiotropy. We apply the method to five human complex traits using GWAS data on up to 339,224 individuals and eQTL data on 5,311 individuals, and we prioritize 126 genes (for example, TRAF1 and ANKRD55 for rheumatoid arthritis and SNX19 and NMRAL1 for schizophrenia), of which 25 genes are new candidates; 77 genes are not the nearest annotated gene to the top associated GWAS SNP. These genes provide important leads to design future functional studies to understand the mechanism whereby DNA variation leads to complex trait variation.
Publishing Year
Date Published
2016-03-28
Journal Title
Nature Genetics
Volume
48
Issue
5
Page
481-487
IST-REx-ID

Cite this

Zhu Z, Zhang F, Hu H, et al. Integration of summary data from GWAS and eQTL studies predicts complex trait gene targets. Nature Genetics. 2016;48(5):481-487. doi:10.1038/ng.3538
Zhu, Z., Zhang, F., Hu, H., Bakshi, A., Robinson, M. R., Powell, J. E., … Yang, J. (2016). Integration of summary data from GWAS and eQTL studies predicts complex trait gene targets. Nature Genetics, 48(5), 481–487. https://doi.org/10.1038/ng.3538
Zhu, Zhihong, Futao Zhang, Han Hu, Andrew Bakshi, Matthew Richard Robinson, Joseph E Powell, Grant W Montgomery, et al. “Integration of Summary Data from GWAS and EQTL Studies Predicts Complex Trait Gene Targets.” Nature Genetics 48, no. 5 (2016): 481–87. https://doi.org/10.1038/ng.3538.
Z. Zhu et al., “Integration of summary data from GWAS and eQTL studies predicts complex trait gene targets,” Nature Genetics, vol. 48, no. 5, pp. 481–487, 2016.
Zhu Z, Zhang F, Hu H, Bakshi A, Robinson MR, Powell JE, Montgomery GW, Goddard ME, Wray NR, Visscher PM, Yang J. 2016. Integration of summary data from GWAS and eQTL studies predicts complex trait gene targets. Nature Genetics. 48(5), 481–487.
Zhu, Zhihong, et al. “Integration of Summary Data from GWAS and EQTL Studies Predicts Complex Trait Gene Targets.” Nature Genetics, vol. 48, no. 5, Springer Nature, 2016, pp. 481–87, doi:10.1038/ng.3538.
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