Detection of recombination events, haplotype reconstruction and imputation of sires using half-sib SNP genotypes
نویسندگان
چکیده
منابع مشابه
Optimal haplotype reconstruction in half-sib families
In the goal of genetic improvement of livestock by marker assisted selection, we aim at reconstructing the haplotypes of sires from their offspring. We reformulated this problem into a binary weighted constraint satisfaction problem. Our results showed these problems have a small treewidth and can be solved optimally, improving haplotype reconstruction compared to previous approaches especially...
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HSPhase is a fast and accurate algorithm for detection of recombination events, sire imputation and haplotype inference of half-sib families. It can be used on data for half-sib families with as few as 4 individuals in a family. The robustness of this algorithm in relation to genotype and pedigree errors was evaluated. If there were more than 20 half-sibs in a family, the performance of the alg...
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in this work, a novel and fast method for direct analysis of volatile compounds (davc) of medicinal plants has been developed by holding a filament from different parts of a plant in the gc injection port. the extraction and analysis of volatile components of a small amount of plant were carried out in one-step without any sample preparation. after optimization of temperature, extraction time a...
Estimation of genome-wide haplotype effects in half-sib designs.
Genome-wide estimated breeding values can be computed from the simultaneous estimates of the effects of small intervals of DNA throughout the genome on a trait or traits of interest. Small intervals or segments of DNA can be created by the use of thousands of single nucleotide polymorphisms (SNP) available in panels of 10, 25 and 50 thousand SNP. A simulation study was conducted to compare fact...
متن کاملPosters IMPUTATION OF MISSING GENOTYPES IN HIGH DENSITY SNP DATA
The accuracy and computational complexity of five methods to impute missing genotypes in high density SNP data was investigated. The haplotype reconstruction package fastPHASE reached the highest accuracies (91% to 98%) for varying proportions (0.2% to 8%) of missing genotypes. Alternative methods based on principal component analysis were less accurate (67% to 94%), but their computational dem...
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ژورنال
عنوان ژورنال: Genetics Selection Evolution
سال: 2014
ISSN: 1297-9686
DOI: 10.1186/1297-9686-46-11