None of these SNPs had a P-value lower than 1×10−4 in our replication sample.
This approach specifically considered the power to replicate an association discovered in a detection sample in an independent replication sample.
Replication sample size: This is the largest exercise ECG dataset including genetic data in the world and as such there is no reasonably sized external replication cohort available.
This replication sample was part of a larger follow-up study on the Hidden Multiplier Trust Game, which will be described elsewhere.
These points focus on (1) replication sample size, (2) access to independent datasets for replication, (3) use of similar populations for replication, and (4) the rationale for selecting replication SNPs.
Then, we used the pi1 statistic to quantify the proportion of the 0.05 FDR genes that are deemed as true positives for trait j, and so trait j is the "replication" sample.
In summary, element (i,j) in this figure represents the pi1 statistic when assessing the 0.05 FDR genes (identified in the discovery sample) from trait i (rows) in the replication sample (trait j)(columns).
We identified 20 independent SNPs associated with T2D at P < 10−4 for testing in a replication sample of 13,170 cases and 25,398 controls, also all of South Asian ancestry.
The study sample was randomly divided into two subsamples: an initial sample (Sample 1: n = 990) and a replication sample (Sample 2: n = 991).
In the replication sample we decided to concentrate only on the DCLK1 gene.
This same trend was observed in the replication sample but not at a statistically significant level.
