Graphical tests for Hardy-Weinberg equilibrium based on the ternary plot.
Hum Hered
; 65(2): 77-84, 2008.
Article
em En
| MEDLINE
| ID: mdl-17898538
ABSTRACT
OBJECTIVE:
We design a graphical test for Hardy-Weinberg equilibrium. This can circumvent the calculation of p values and the statistical (non)significance of a large number of bi-allelic markers can be inferred from their position in a graph.METHOD:
By rewriting expressions for the chi(2) statistic (with and without continuity correction) in terms of the heterozygote frequency an acceptance region for Hardy-Weinberg equilibrium is obtained that can be depicted in a ternary plot.RESULTS:
We obtain equations for curves in the ternary plot that separate markers that are out of Hardy-Weinberg equilibrium from those that are in equilibrium. The curves depend on the chosen significance level, the sample size and on a continuity correction parameter. Some examples of graphical tests using a set of 106 SNPs on the long arm of human chromosome 22 are described. Significant markers and poor markers with a lot of missing values are easily identified in the proposed plots. R software for making the diagrams is provided.CONCLUSION:
The proposed graphs can be used as control charts for spotting problematic markers in large scale genotyping studies, and constitute an excellent tool for the graphical exploration of bi-allelic marker data.
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Base de dados:
MEDLINE
Assunto principal:
Modelos Genéticos
Tipo de estudo:
Risk_factors_studies
Limite:
Humans
Idioma:
En
Revista:
Hum Hered
Ano de publicação:
2008
Tipo de documento:
Article
País de afiliação:
Espanha