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Linkage analysis using sex-specific recombination fractions with GENEHUNTER-MODSCORE

Item Type:Article
Title:Linkage analysis using sex-specific recombination fractions with GENEHUNTER-MODSCORE
Creators Name:Dietter, J. and Mattheisen, M. and Fuerst, R. and Rueschendorf, F. and Wienker, T.F. and Strauch, K.
Abstract:MOTIVATION: Sex-specific marker maps have become increasingly available. We have implemented the usage of sex-specific recombination frequencies in the GENEHUNTER-MODSCORE program that performs multipoint linkage analysis. Furthermore, we have devised a consistent method to choose the combinations of male and female genetic positions at which linkage scores should be calculated. Marker coordinates can be read automatically from publicly available genetic maps. RESULTS: In a MOD-score analysis of the COGA dataset provided for Genetic Analysis Workshop 14, the highest linkage peak on chromosome 1 further increases when using sex-specific maps, while some smaller peaks are decreased. Simulations confirm that the MOD score can be biased when a sex-averaged instead of the correct sex-specific map is employed. This shows that an adequate modeling of the female:male ratio of genetic distances is important, especially for complex traits. AVAILABILITY: The new version of GENEHUNTER-MODSCORE can be downloaded from the following website: http://www.staff.uni-marburg.de/~strauchk/software.html.
Keywords:Algorithms, Chromosome Mapping, Computer Simulation, Gene Frequency, Genetic Models, Genetic Recombination, Lod Score, Pedigree, Sex Factors, Single Nucleotide Polymorphism
Source:Bioinformatics
ISSN:1367-4803
Publisher:Oxford University Press (U.K.)
Volume:23
Number:1
Page Range:64-70
Date:1 January 2007
Official Publication:https://doi.org/10.1093/bioinformatics/btl539
PubMed:View item in PubMed

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