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Vol. 62, No. 3, 2006
Issue release date: November 2006
Section title: Original Paper
Hum Hered 2006;62:165–174
(DOI:10.1159/000096444)

Allowing for Missing Data at Highly Polymorphic Genes when Testing for Maternal, Offspring and Maternal-Fetal Genotype Incompatibility Effects

Hsieh H.-J. · Palmer C.G.S. · Sinsheimer J.S.
aBiostatistics, bDepartment of Psychiatry and Biobehavioral Sciences, cHuman Genetics, dBiomathematics, University of California, Los Angeles, Calif., USA

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Article / Publication Details

First-Page Preview
Abstract of Original Paper

Received: 4/3/2006
Accepted: 8/7/2006
Published online: 11/16/2006

Number of Print Pages: 10
Number of Figures: 2
Number of Tables: 3

ISSN: 0001-5652 (Print)
eISSN: 1423-0062 (Online)

For additional information: http://www.karger.com/HHE

Abstract

Genes can be associated with disease through an individual’s inherited genotype, the maternal genotype or the interaction between these two. When the gene is highly polymorphic, it is more difficult to identify the gene’s functional role than for less polymorphic loci, because different alleles at the locus may be associated with the disease through separate and joint effects from maternal and offspring genotypes. Family-based studies are used to test genetic associations because of their robustness to population stratification. However, parental genotype data are often missing, and omitting incompletely genotyped families is inefficient. Methods have been proposed to accommodate incomplete families in family-based association studies. They are not easily generalized to allow simultaneous examination of offspring allelic, maternal allelic and maternal-fetal genotype (MFG) incompatibility effects. Since many MFG incompatibility effects occur through matching between maternal and offspring’s genotypes, we present an identity-by-state (IBS) framework to incorporate incomplete families in the MFG test when modeling genetic effects produced by a polymorphic gene. Using simulations, we examine the MFG test’s performance with incomplete parental genotype data and an IBS framework. The MFG test using the IBS framework is immune to population stratification and efficiently uses information from incomplete families.


  

Author Contacts

Dr. Janet Sinsheimer
Department of Human Genetics, 5357C Gonda Center
695 Charles E. Young Drive South, Box 957088
Los Angeles, CA 90095-7088 (USA)
Tel. +1 310 825 8002, Fax +1 310 825 8685, E-Mail janet@mednet.ucla.edu

  

Article Information

Received: April 3, 2006
Accepted after revision: August 7, 2006
Published online: October 25, 2006
Number of Print Pages : 10
Number of Figures : 2, Number of Tables : 3, Number of References : 28

  

Publication Details

Human Heredity (International Journal of Human and Medical Genetics)

Vol. 62, No. 3, Year 2006 (Cover Date: November 2006)

Journal Editor: Devoto, M. (Philadelphia, Pa.)
ISSN: 0001–5652 (print), 1423–0062 (Online)

For additional information: http://www.karger.com/HHE


Article / Publication Details

First-Page Preview
Abstract of Original Paper

Received: 4/3/2006
Accepted: 8/7/2006
Published online: 11/16/2006

Number of Print Pages: 10
Number of Figures: 2
Number of Tables: 3

ISSN: 0001-5652 (Print)
eISSN: 1423-0062 (Online)

For additional information: http://www.karger.com/HHE


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