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Abstract Details

Activity Number: 623
Type: Contributed
Date/Time: Thursday, August 2, 2012 : 8:30 AM to 10:20 AM
Sponsor: Section on Statistics in Epidemiology
Abstract - #305438
Title: Genotype-Specific Missingness in Genetic Data
Author(s): Zhaoxia Yu*+
Companies: University of California at Irvine
Address: Department of Statistics, Irvine, CA, 92697-1250, United States
Keywords: genotype ; missingness ; nonrandom ; transmission disequilibrium ; bias
Abstract:

An important question in genetic association studies is whether missingness of genotype data depends on the underlying true genotypes. We propose a statistical method to estimate the three call rates at a single nucleotide polymorphism (SNP) using case-parents data. A likelihood ratio test is derived to test whether the call rates are all the same. The application of our methods to a genome-wide association study demonstrates that rare genotypes are usually more difficult to call and this type of nonrandom missingness introduces systematic bias that tends to estimate the common allele to be the risk allele.


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