منابع مشابه
Genotype imputation.
Genotype imputation is now an essential tool in the analysis of genome-wide association scans. This technique allows geneticists to accurately evaluate the evidence for association at genetic markers that are not directly genotyped. Genotype imputation is particularly useful for combining results across studies that rely on different genotyping platforms but also increases the power of individu...
متن کاملGenotype imputation via matrix completion.
Most current genotype imputation methods are model-based and computationally intensive, taking days to impute one chromosome pair on 1000 people. We describe an efficient genotype imputation method based on matrix completion. Our matrix completion method is implemented in MATLAB and tested on real data from HapMap 3, simulated pedigree data, and simulated low-coverage sequencing data derived fr...
متن کاملAssessment of genotype imputation methods
Several methods have been proposed to impute genotypes at untyped markers using observed genotypes and genetic data from a reference panel. We used the Genetic Analysis Workshop 16 rheumatoid arthritis case-control dataset to compare the performance of four of these imputation methods: IMPUTE, MACH, PLINK, and fastPHASE. We compared the methods' imputation error rates and performance of associa...
متن کاملMaCH-admix: genotype imputation for admixed populations.
Imputation in admixed populations is an important problem but challenging due to the complex linkage disequilibrium (LD) pattern. The emergence of large reference panels such as that from the 1,000 Genomes Project enables more accurate imputation in general, and in particular for admixed populations and for uncommon variants. To efficiently benefit from these large reference panels, one key iss...
متن کاملA Coalescent Model for Genotype Imputation
The potential for imputed genotypes to enhance an analysis of genetic data depends largely on the accuracy of imputation, which in turn depends on properties of the reference panel of template haplotypes used to perform the imputation. To provide a basis for exploring how properties of the reference panel affect imputation accuracy theoretically rather than with computationally intensive imputa...
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ژورنال
عنوان ژورنال: Annual Review of Genomics and Human Genetics
سال: 2009
ISSN: 1527-8204,1545-293X
DOI: 10.1146/annurev.genom.9.081307.164242