An efficient method to handle the ‘large p, small n’ problem for genomewide association studies using Haseman–Elston regression

Journal of genetics

BUJUN MEI1 2²  ZHIHUA WANG¹ 

[1] Department of Civil Engineering, Hetao College, Bayannur 015000, People’s Republic of China$$;Agriculture Department, Hetao College, Bayannur 015000, People’s Republic of China$$

关键词: Haseman–Elston regression;    genomewide association studies;    large p small n problem;    identity by state;    Julia language.;   

DOI  :  

学科分类：生物科学（综合）

来源: Indian Academy of Sciences

【 摘 要 】

The ‘large p, small n’ problem in genomewide association studies (GWAS) is an important subject in genetic studies. Many approaches have been proposed for this issue, but none of them successfully combine the Haseman–Elston (H–E) regression with sliding-window scan approaches in GWAS. In this article, we extended H–E regression to GWAS, and replaced original data with different measurements of phenotype of sib pairs. Meanwhile, we also applied hidden Markov model to infer identity by state. Using subsequent simulation studies, we found that it had higher statistical power than the corresponding single-marker association studies. The advantage of the H–E regression was also sufficient to capture about 48.01% of the quantitative trait locus (QTL). Meanwhile, the results show that the power decreases with the increase in the number of QTLs,and the power of H–E regression is sensitive to heritability.

【 授权许可】

Unknown