Chunk #21 — Discussion

Source: How to deal with the early GWAS data when imputing and combining different arrays is necessary.
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In Figure 3c one may ask whether the Q–Q plot using only 60K overlapping SNPs is comparable to Q–Q plots using larger number of SNPs. We compared the distribution of association P-values using 60K cases and controls and 350K cases and controls, and both distributions were quite similar (data not shown).