title: A novel permutation test for case-only analysis identifies epistatic effects on human longevity in the FOXO gene family.
abstract: Genetic interactions or epistasis could make a substantial contribution to variation in human complex traits including longevity. However, detecting epistatic interactions in high dimensional datasets is difficult due to various reasons including multiple testing of correlated tests. We introduce a novel permutation strategy to the case-only analysis of gene-by-gene interaction using multiple SNPs. The method is applied to genes coding for Forkhead box O transcription factors which recently have been associated with human longevity across different populations hypothesizing that epistatic interaction in the regulation and expression of the FOXO gene family could contribute to the human longevity phenotype. Genotype data were collected from 1088 individuals from the Danish 1905 birth cohort aged over 92-93 years with 12 SNPs in the FOXO1a and 15 SNPs in the FOXO3a genes. Our analysis detected a joint effect between rs9486902 in FOXO3a and rs2701858 in FOXO1a that highly significantly contributes to human longevity (OR = 3.23, 95% CI: 2.93-3.53) which is consistent in both males and females. Our results were compared with published studies, and importance of our novel method and findings was discussed.
authors.affiliation: Epidemiology, Institute of Public Health, University of Southern Denmark, Odense C, Denmark. qtan@health.sdu.dk
authors.forename: Qihua
authors.initials: Q
authors.lastname: Tan
authors.forename: Mette
authors.initials: M
authors.lastname: Soerensen
authors.forename: Torben A
authors.initials: TA
authors.lastname: Kruse
authors.forename: Kaare
authors.initials: K
authors.lastname: Christensen
authors.forename: Lene
authors.initials: L
authors.lastname: Christiansen
mesh_terms: D000369:Aged, 80 and over; D000483:Alleles; D016001:Confidence Intervals; D004843:Epistasis, Genetic; D005260:Female; D000071161:Forkhead Box Protein O1; D000071316:Forkhead Box Protein O3; D051858:Forkhead Transcription Factors / Q000235:genetics / Q000378:metabolism; D018507:Gene Expression Regulation, Developmental; D005787:Gene Frequency; D005828:Genetics, Population / Q000379:methods*; D006579:Heterozygote; D006801:Humans; D008136:Longevity / Q000235:genetics*; D008297:Male; D005810:Multigene Family; D010641:Phenotype; D020641:Polymorphism, Single Nucleotide
chemical_list: C085126:FOXO1 protein, human; C499517:FOXO3 protein, human; D000071161:Forkhead Box Protein O1; D000071316:Forkhead Box Protein O3; D051858:Forkhead Transcription Factors
keywords: FOXO genes; case-only analysis; epistatic effect; longevity; permutation