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Can I use Whole-Genome amplified (WGA) samples with the Infinium HD assay?

April 26, 2017amplified assay HD infinium samples WGA whole-genome

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Can I use Whole-Genome amplified (WGA) samples with the Infinium HD assay?

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Illumina does not recommend using WGA samples as input for the Infinium HD Assay because the first step in the protocol is a WGA step. Up to a 4% decrease in call rate was observed in the limited internal testing performed. The decrease in call rate varies depending on the specific sample and WGA method used. Additionally, any allelic bias present in the original WGA sample may be compounded by another WGA reaction.