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. 2015 May 6;200(3):719–736. doi: 10.1534/genetics.115.176107

Figure 1.

Figure 1

P-values and posterior inclusion probabilities (PIPs). Circles represent the individual SNP-based P-values on the left y-axis and lines represent the PIPs on the right y-axis. The gold color indicates the true causal SNPs. The color-coded LD pattern is shown below. The noncausal variant (SNP23) has the smallest P-values, but is purely due to high LD with the causal variant (SNP17) and statistical fluctuation. The causal variant (SNP25) does not achieve the smallest P-values but is correctly captured by the highest PIP.