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Genotype imputation with thousands of genomes

Marchini, J (University of Oxford)
Wednesday 14 July 2010, 11:00-11:30

Seminar Room 1, Newton Institute


Genotype imputation is now widely used in genome-wide association studies as a way of boosting power, fine-mapping and facilitating meta-analysis. The 1000 Genome Project (1KGP) will produce a large set of haplotypes from a diverse set of populations that could be used as a imputation reference panel. We describe the "surrogate family" phasing idea implemented in IMPUTE v2 and show how this method is ideally suited to imputation using a large diverse panel of haplotypes. IMPUTE v2 can also be used for phasing and we illustrate how this method has advantages when applied to a multi-population dataset such as the 1KGP data.


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