Research article summary (published 15 Sep 2009):

Regression-based approach for testing the association between multi-region haplotype configuration and complex trait.

Full Abstract

BACKGROUND: It is quite common that the genetic architecture of complex traits involves many genes and their interactions. Therefore, dealing with multiple unlinked genomic regions simultaneously is desirable. RESULTS: In this paper we develop a regression-based approach to assess the interactions of haplotypes that belong to different unlinked regions, and we use score statistics to test the null hypothesis of non-genetic association. Additionally, multiple marker combinations at each unlinked region are considered. The multiple tests are settled via the minP approach. The P value of the "best" multi-region multi-marker configuration is corrected via Monte-Carlo simulations. Through simulation studies, we assess the performance of the proposed approach and demonstrate its validity and power in testing for haplotype interaction association. CONCLUSION: Our simulations showed that, for binary trait without covariates, our proposed methods prove to be equal and even more powerful than htr and hapcc which are part of the FAMHAP program. Additionally, our model can be applied to a wider variety of traits and allow adjustment for other covariates. To test the validity, our methods are applied to analyze the association between four unlinked candidate genes and pig meat quality.

Author information

Author/s: Hu, Yanling (Y); Jason, Sinnwell (S); Wang, Qishan (Q); Pan, Yuchun (Y); Zhang, Xiangzhe (X); Zhao, Hongbo (H); Li, Changlong (C); Sun, Libin (L);

Affiliation: School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, PR China. ylhu0323(-atsign-)sjtu.edu.cn

Journal and publication information

Publication Type: Comparative Study; Journal Article; Research Support, Non-U.S. Gov't; Validation Studies

Journal: BMC genetics (BMC Genet), published in England. (Language: eng)

Reference: 2009-; vol 10 (issue ) : pp 56

Dates: Created 2009/10/13; Completed 2009/11/02;

PMID: 19761592, status: MEDLINE (last retrieval date: 11/2/2009, IMS Date: )

Sourced from the National Library of Medicine. Abstract text and other information may be subject to copyright.

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MeSH headings (categories)

This article was linked to the MESH Headings shown below.

Animals Computer Simulation Gene Frequency Genetic Markers Haplotypes Linkage Disequilibrium Meat - standards

Meat - standards Models, Genetic Models, Statistical Polymorphism, Single Nucleotide Quantitative Trait, Heritable Regression Analysis Swine - genetics

Associated Chemicals: Genetic Markers (0)

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