Practical considerations regarding the use of genotype and pedigree data to model relatedness in the context of genome-wide association studies.
G3 (Bethesda)
; 3(10): 1861-7, 2013 Oct 03.
Article
en En
| MEDLINE
| ID: mdl-23979941
ABSTRACT
Genome-wide association studies of complex traits often are complicated by relatedness among individuals. Ignoring or inappropriately accounting for relatedness often results in inflated type I error rates. Either genotype or pedigree data can be used to estimate relatedness for use in mixed-models when undertaking quantitative trait locus mapping. We performed simulations to investigate methods for controlling type I error and optimizing power considering both full and partial pedigrees and, similarly, both sparse and dense marker coverage; we also examined real data sets. (1) When marker density was low, estimating relatedness by genotype data alone failed to control the type I error rate; (2) this was resolved by combining both genotype and pedigree data. (3) When sufficiently dense marker data were used to estimate relatedness, type I error was well controlled and power increased; however, (4) this was only true when the relatedness was estimated using genotype data that excluded genotypes on the chromosome currently being scanned for a quantitative trait locus.
Palabras clave
Texto completo:
1
Colección:
01-internacional
Banco de datos:
MEDLINE
Asunto principal:
Linaje
/
Estudio de Asociación del Genoma Completo
/
Genotipo
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Modelos Genéticos
Tipo de estudio:
Prognostic_studies
/
Risk_factors_studies
Límite:
Animals
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Humans
Idioma:
En
Revista:
G3 (Bethesda)
Año:
2013
Tipo del documento:
Article