The effect of an imprecise map on interval mapping QTLs.
Genet Res
; 84(1): 47-55, 2004 Aug.
Article
em En
| MEDLINE
| ID: mdl-15663258
ABSTRACT
The statistical analysis of quantitative trait locus (QTL) experiments relies on the use of a linkage map of the markers genotyped. Such a map is, at best, a good estimate of the true map. Resources might be diverted into developing better marker maps or improved maps become available after the analysis, raising concerns over the original analysis. It is therefore important to understand the sensitivity of QTL analysis to map inaccuracy. We have used simulation methods to investigate the consequences of an incorrect map on the results of a QTL analysis using interval mapping. Backcross data sets were generated with a particular map and then analysed with both the correct map and incorrect maps. If the incorrect maps maintained the true linkage groups (i.e. no markers were incorrectly assigned to another linkage group), the accuracy of the map had little or no impact on the ability to detect QTLs, the true significance levels of the tests or the relative placement of QTLs. When a marker was incorrectly placed on another linkage group, there was a small increase in the level of the test. After adjusting for this increase, there was a decrease in power to detect a QTL near the misplaced marker. This decrease was of a similar magnitude to that found when using a single-marker analysis compared with interval mapping. These results mean that QTL analyses can proceed without the need for very accurate marker maps, and that estimated QTL positions can be translated onto updated maps without the need for reanalysis.
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Coleções:
01-internacional
Base de dados:
MEDLINE
Assunto principal:
Mapeamento Cromossômico
/
Locos de Características Quantitativas
Tipo de estudo:
Prognostic_studies
Idioma:
En
Revista:
Genet Res
Ano de publicação:
2004
Tipo de documento:
Article
País de afiliação:
Nova Zelândia