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However, the challenge remains to prioritize SNPs from GWAS for further replication [ 1]; even if one would try to replicate only the top 1% with strongest genetic evidence 5,000-10,000 Sneedneed to be genotyped in replication studies.
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We suggest that more markers should be genotyped in subsequent studies for a better mapping.
Ten SNPs of IL28B genetic variations were genotyped in each patient.
The E1b1b1c haplogroup was genotyped in samples from Einstein, MSKCC, PHS and HPFS; the R1b1a2 haplogroup was genotyped in samples from Einstein, MSKCC, PHS and AHS.
In total, 132 and 131 sires were genotyped in Line 1 and Line 2, respectively.
We included the top 6 genotyped SNPs from the discovery dataset with p-values of less than 0.05 in the 28 SNPs that were genotyped in our replication cohort.
VH researched the SNPs to be genotyped, prepared samples and was involved in the data analysis.
In many GWASs, it is a common practice to report the summary test statistics and p values of the SNPs under a specific genetic model, usually an additive model, which were further genotyped in the replication stage and were finally defined to be significantly associated with a phenotype of interest.
In total, 200 fishish were genotyped and used in QTL analysis (File S1).
In total, 63 polyamine-related SNPs were genotyped, as shown in Supplementary Table S1.
In both studies, 56% of eligible participants were genotyped and included in the analysis.
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