Detecting epistasis with restricted response patterns in pairs of biallelic loci.
Details
Serval ID
serval:BIB_13F0822BBCCD
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Detecting epistasis with restricted response patterns in pairs of biallelic loci.
Journal
Annals of Human Genetics
ISSN
1469-1809 (Electronic)
ISSN-L
0003-4800
Publication state
Published
Issued date
2011
Peer-reviewed
Oui
Volume
75
Number
1
Pages
133-145
Language
english
Abstract
Well-established examples of genetic epistasis between a pair of loci typically show characteristic patterns of phenotypic distributions in joint genotype tables. However, inferring epistasis given such data is difficult due to the lack of power in commonly used approaches, which decompose the epistatic patterns into main plus interaction effects followed by testing the interaction term. Testing additive-only or all terms may have more power, but they are sensitive to nonepistatic patterns. Alternatively, the epistatic patterns of interest can be enumerated and the best matching one is found by searching through the possibilities. Although this approach requires multiple testing correction over possible patterns, each pattern can be fitted with a regression model with just one degree of freedom and thus the overall power can still be high, if the number of possible patterns is limited. Here we compare the power of the linear decomposition and pattern search methods, by applying them to simulated data generated under several patterns of joint genotype effects with simple biological interpretations. Interaction-only tests are the least powerful; while pattern search approach is the most powerful if the range of possibilities is restricted, but still includes the true pattern.
Keywords
Epistasis, Genetic, Humans, Models, Genetic, Polymorphism, Single Nucleotide, Quantitative Trait Loci
Pubmed
Web of science
Create date
23/02/2012 12:20
Last modification date
20/08/2019 12:42