Gene-Trait Similarity Regression for Multimarker-Based Association Analysis
Article first published online: 5 FEB 2009
© 2009, The International Biometric Society
Volume 65, Issue 3, pages 822–832, September 2009
How to Cite
Tzeng, J.-Y., Zhang, D., Chang, S.-M., Thomas, D. C. and Davidian, M. (2009), Gene-Trait Similarity Regression for Multimarker-Based Association Analysis. Biometrics, 65: 822–832. doi: 10.1111/j.1541-0420.2008.01176.x
- Issue published online: 14 SEP 2009
- Article first published online: 5 FEB 2009
- Received November 2007. Revised August 2008. Accepted August 2008.
- Haplotype-based association test;
- Haplotype sharing;
- Haplotype similarity
Summary We propose a similarity-based regression method to detect associations between traits and multimarker genotypes. The model regresses similarity in traits for pairs of “unrelated” individuals on their haplotype similarities, and detects the significance by a score test for which the limiting distribution is derived. The proposed method allows for covariates, uses phase-independent similarity measures to bypass the needs to impute phase information, and is applicable to traits of general types (e.g., quantitative and qualitative traits). We also show that the gene-trait similarity regression is closely connected with random effects haplotype analysis, although commonly they are considered as separate modeling tools. This connection unites the classic haplotype sharing methods with the variance-component approaches, which enables direct derivation of analytical properties of the sharing statistics even when the similarity regression model becomes analytically challenging.