Extended T2 tests for longitudinal family data in whole genome sequencing studies

BMC Proceedings

Proceedings

Yiwei Liu¹  Zheyang Wu¹  Jing Xuan¹ 

[1] Department of Mathematical Sciences, Worcester Polytechnic Institute, 100 Institute Road, 01609-2280, Worcester, MA, USA;

关键词: Rare Variant;    Whole Genome Sequencing;    Family Data;    Genetic Analysis Workshop;    Whole Genome Sequencing Data;   

DOI  :  10.1186/1753-6561-8-S1-S40

来源: Springer

【 摘 要 】

Family data and rare variants are two key features of whole genome sequencing analysis for hunting the missing heritability of common human diseases. Recently, Zhu and Xiong proposed the generalized T2 tests that combine rare variant analysis and family data analysis. In similar fashion, we developed the extended T2 tests for longitudinal whole genome sequencing data for family-based association studies. The new methods simultaneously incorporate three correlation sources: from linkage disequilibrium, from pedigree structure, and from the repeated measures of covariates. We assess and compare these methods using the simulated data from Genetic Analysis Workshop 18. We show that, in general, the extended T2 tests incorporating longitudinal repeated measures have higher power than the single-time-point T2 tests in detecting hypertension-associated genome segments.

【 授权许可】

Unknown   
© Liu et al.; licensee BioMed Central Ltd. 2014. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.