期刊
ANNALS OF HUMAN GENETICS
卷 73, 期 -, 页码 601-613出版社
WILEY-BLACKWELL
DOI: 10.1111/j.1469-1809.2009.00539.x
关键词
Family based association tests (FBATs); transmission disequilibrium test (TDT); principal component analysis (PCA); variance-components
资金
- National Science Foundation of China
- NIH [R01 AR050496, R21 AG027110, R01 AG026564, P50 AR055081, R21 AA015973]
- Huo Ying Dong Education Foundation, Hunan Province
- Ministry of Education of China
P>Traditional transmission disequilibrium test (TDT) based methods for genetic association analyses are robust to population stratification at the cost of a substantial loss of power. We here describe a novel method for family-based association studies that corrects for population stratification with the use of an extension of principal component analysis (PCA). Specifically, we adopt PCA on unrelated parents in each family. We then infer principal components for children from those for their parents through a TDT-like strategy. Two test statistics within the variance-components model are proposed for association tests. Simulation results show that the proposed tests have correct type I error rates regardless of population stratification, and have greatly improved power over two popular TDT-based methods: QTDT and FBAT. The application to the Genetic Analysis Workshop 16 (GAW16) data sets attests to the feasibility of the proposed method.
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