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Table 3 Validation of eight PyroAssays performed in the independent set of B-lymphocyte cell lines

From: Discrimination between human populations using a small number of differentially methylated CpG sites: a preliminary study using lymphoblastoid cell lines and peripheral blood samples of European and Chinese origin

PyroAssay number_ position of CpG in the assay CEU (n) CHB (n) CEU.mean CHB.mean CEU.var CHB.var CEU.mean - CHB.mean padj_beta Pop_diff potential
1_CpG1 34 34 0.800 0.759 0.008 0.006 0.040 0.032 1
2_CpG1 34 34 0.243 0.252 0.052 0.040 −0.008 0.723 0
3_CpG1 34 34 0.246 0.222 0.069 0.051 0.024 0.828 0
3_CpG2 34 34 0.203 0.168 0.044 0.031 0.035 0.696 0
5_CpG1 34 34 0.718 0.594 0.057 0.041 0.124 0.049 1
5_CpG2 34 34 0.561 0.420 0.046 0.046 0.141 0.040 1
5_CpG3 34 34 0.522 0.448 0.064 0.049 0.074 0.319 0
6_CpG1 34 34 0.132 0.242 0.017 0.029 −0.110 0.007 1
6_CpG2 34 34 0.236 0.343 0.036 0.031 −0.107 0.018 1
8_CpG1 35 35 0.481 0.180 0.111 0.039 0.301 0.000 1
8_CpG2 35 35 0.492 0.166 0.125 0.050 0.325 0.000 1
8_CpG3 35 35 0.459 0.193 0.108 0.050 0.267 0.002 1
9_CpG1 34 34 0.713 0.806 0.042 0.035 −0.093 0.075 0
9_CpG2 34 34 0.632 0.772 0.035 0.021 −0.140 0.001 1
9_CpG3 34 34 0.657 0.784 0.049 0.030 −0.127 0.017 1
10_CpG1 30 31 0.146 0.561 0.035 0.055 −0.415 0.000 1
10_CpG2 30 31 0.171 0.640 0.043 0.062 −0.469 0.000 1
  1. CpG sites characterized by statistically significant inter-population differences in their methylation level are bolded. padj_beta: p-value after Benjamin Hochberg correction; pop-diff potential: differentiation potential of individual sites: 0-non-differentiating; 1-differentiating