z-logo
Premium
Association statistics under the PPL framework
Author(s) -
Huang Yungui,
Vieland Veronica J.
Publication year - 2010
Publication title -
genetic epidemiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.301
H-Index - 98
eISSN - 1098-2272
pISSN - 0741-0395
DOI - 10.1002/gepi.20537
Subject(s) - epistasis , linkage disequilibrium , computer science , pedigree chart , trait , statistics , summary statistics , linkage (software) , statistical hypothesis testing , data mining , mathematics , biology , genetics , haplotype , gene , genotype , programming language
In this paper, we extend the PPL framework to the analysis of case‐control (CC) data and introduce three new linkage disequilibrium (LD) statistics. These statistics measure the evidence for or against LD, rather than testing the null hypothesis of no LD, and they therefore avoid the need for multiple testing corrections. They are suitable not only for CC designs but also can be used in application to family data, ranging from trios to complex pedigrees, all under the same statistical framework, allowing for the seamless analysis of disparate data structures. They also provide other core advantages of the PPL framework, including the use of sequential updating to accumulate LD evidence across potentially heterogeneous sets or subsets of data; parameterization in terms of a very general trait likelihood, which simultaneously considers dominant, recessive, and additive models; and a straightforward mechanism for modeling two‐locus epistasis. Finally, by implementing the new statistics within the PPL framework, we have a ready mechanism for incorporating linkage information, obtained from distinct data, into LD analyses in the form of a prior distribution. Here we examine the performance of the proposed LD statistics using simulated data, as well as assessing the effects of key modeling violations on this performance. Genet. Epidemiol . 34:835‐845, 2010. © 2010 Wiley‐Liss, Inc.

This content is not available in your region!

Continue researching here.

Having issues? You can contact us here