Suppose you are performing a pathway-based analysis of a GWAS data set, generated using 500k Affymetrix Genechips. You a

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answerhappygod
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Suppose you are performing a pathway-based analysis of a GWAS data set, generated using 500k Affymetrix Genechips. You a

Post by answerhappygod »

Suppose you are performing a pathway-based analysis of a GWAS
data set, generated using 500k Affymetrix Genechips. You are
interested in studying one pathway, with 60 genes, each gene with
an average length of 30 kb. Approximately how many total “pathway
SNPs” would you expect to find on the 500k Affy Genechip within
10kb (10kb upstream and 10kb downstream) of the 60 pathway genes?
Suppose that you identified 1,000 such SNPs. What would be a
possible explanation for the larger-than-expected number?
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