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Genetics. 2007 Aug;176(4):2521-7. Epub 2007 Feb 4.

Genetic mapping in the presence of genotyping errors.

Author information

1
Myriad Genetics, 320 Wakara Way, Salt Lake City, UT 84108, USA. dcartwri@myriad.com

Abstract

Genetic maps are built using the genotypes of many related individuals. Genotyping errors in these data sets can distort genetic maps, especially by inflating the distances. We have extended the traditional likelihood model used for genetic mapping to include the possibility of genotyping errors. Each individual marker is assigned an error rate, which is inferred from the data, just as the genetic distances are. We have developed a software package, called TMAP, which uses this model to find maximum-likelihood maps for phase-known pedigrees. We have tested our methods using a data set in Vitis and on simulated data and confirmed that our method dramatically reduces the inflationary effect caused by increasing the number of markers and leads to more accurate orders.

PMID:
17277374
PMCID:
PMC1950651
DOI:
10.1534/genetics.106.063982
[Indexed for MEDLINE]
Free PMC Article
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