CpGs included on the QIAseq targeted methyl panel (and Illumina EPIC assay) | Repeatability (ICC, 95% CI), using duplicated samples both measured with Qiagen targeted methyl panel | Repeatability (ICC, 95% CI), using replicated samples measured with Qiagen targeted methyl panel and Illumina HM450K assay | ||||||
---|---|---|---|---|---|---|---|---|
CpG^ | Chr | Position⁑ | WB samples 7 pairs | FFPE samples 3 pairs | Combined samples 10 pairs | WB samples 25 pairs | FFPE samples 7 pairs | Combined samples 32 pairs |
cg18072778* | 1 | 148,203,924 | 0.54 (0–0.90) | 0.37 (0–0.94) | 0.85 (0.54–0.96) | 0 (0–0.39) | 0.4 (0–0.88) | 0.76 (0.56–0.88) |
cg04546999* | 1 | 152,956,430 | 0.19 (0–0.75) | 0.80 (0–0.99) | 0.92 (0.74–0.98) | 0.09 (0–0.47) | 0 (0–0.68) | 0.8 (0.63–0.9) |
cg17714793 | 1 | 153,538,431 | 0 (0–0.63) | 0.99 (0.47–1) | 0.72 (0.24–0.92) | |||
cg01608070 | 1 | 157,853,274 | 0.98 (0.89–1) | 0.46 (0–0.96) | 0.96 (0.84–0.99) | |||
cg21501207 | 1 | 162,383,000 | 0.89 (0.56–0.98) | 0.28 (0–0.94) | 0.80 (0.43–0.94) | |||
cg26237810 | 1 | 200,669,215 | 0.52 (0–0.89) | 0.96 (0–1) | 0.78 (0.29–0.95) | |||
cg26354017* | 1 | 205,819,088 | 0.92 (0.64–0.98) | 0.70 (0–0.97) | 0.94 (0.78–0.98) | 0.83 (0.67–0.92) | 0.46 (0–0.86) | 0.83 (0.69–0.92) |
cg14159672* | 1 | 205,819,179 | 0.95 (0.71–0.99) | 0.96 (0.27–1) | 0.98 (0.94–1.00) | 0.79 (0.57–0.9) | 0.76 (0.16–0.95) | 0.82 (0.66–0.91) |
cg14893161* | 1 | 205,819,252 | 0.92 (0.63–0.98) | 0.99 (0.59–1) | 0.97 (0.89–0.99) | 0.94 (0.86–0.97) | 0.73 (0–0.94) | 0.93 (0.86–0.96) |
cg05841700 | 1 | 205,819,384 | 0.96 (0.80–0.99) | 0.68 (0–0.98) | 0.96 (0.88–0.99) | |||
cg24503407* | 1 | 205,819,493 | 0.92 (0.65–0.98) | 0 (0–0.96) | 0.95 (0.82–0.99) | 0.87 (0.74–0.94) | 0.8 (0.02–0.98) | 0.88 (0.76–0.94) |
cg16334093 | 1 | 205,819,601 | 0.87 (0.43–0.97) | 0.64 (0–0.97) | 0.87 (0.54–0.97) | |||
cg07157834* | 1 | 205,819,610 | 0.90 (0.47–0.98) | 0 (0–0.89) | 0.94 (0.75–0.98) | 0.6 (0.29–0.81) | 0.26 (0–0.82) | 0.65 (0.39–0.81) |
cg20004147 | 2 | 65,718,931 | 0.98 (0.92–1) | 0.98 (0.47–1) | 0.98 (0.94–1.00) | |||
cg21824770 | 2 | 243,012,164 | 0.28 (0–0.78) | 0 (0–0.95) | 0.88 (0.58–0.97) | |||
cg10123377 | 3 | 42,387,525 | 0.97 (0.87–0.99) | 0.68 (0–0.97) | 0.92 (0.72–0.98) | |||
cg01760119 | 3 | 101,661,383 | 0.12 (0–0.7) | 0.87 (0–0.99) | 0.98 (0.93–1.00) | |||
cg12012426† | 4 | 1,366,464 | – | – | – | – | – | – |
cg19704288* | 4 | 1,582,182 | 0.24 (0–0.79) | 0.76 (0–0.98) | 0.81 (0.43–0.95) | 0 (0–0.38) | 0.81 (0.33–0.96) | 0.82 (0.66–0.91) |
cg02722613*, # | 4 | 25,162,899 | 0.75 (0.18–0.94) | 0 (0–0.89) | 0.77 (0.38–0.93) | 0.87 (0.71–0.94) | – | – |
cg19182683 | 4 | 183,730,519 | 0.98 (0.91–1) | 0.94 (0–1) | 0.97 (0.89–0.99) | |||
cg07158503*, # | 5 | 135,415,693 | 0.63 (0–0.92) | 0.96 (0.12–1) | 0.79 (0.35–0.94) | 0.55 (0.22–0.77) | – | – |
cg11608150* | 5 | 135,415,949 | 0.71 (0.02–0.93) | 0.17 (0–0.97) | 0.61 (0.03–0.89) | 0.91 (0.81–0.96) | 0.44 (0–0.94) | 0.84 (0.7–0.92) |
cg06478886* | 5 | 135,416,030 | 0.79 (0.24–0.96) | 0.98 (0.44–1) | 0.85 (0.54–0.96) | 0.94 (0.86–0.97) | 0.31 (0–0.83) | 0.9 (0.8–0.95) |
cg04481923* | 5 | 135,416,206 | 0.74 (0.05–0.95) | 0 (0–0.89) | 0.23 (0–0.71) | 0.59 (0.28–0.78) | 0.74 (0.04–0.95) | 0.62 (0.34–0.79) |
cg06536614* | 5 | 135,416,381 | 0.81 (0.24–0.95) | 0.47 (0–0.95) | 0.63 (0.08–0.88) | 0.71 (0.46–0.86) | 0 (0–0.68) | 0.7 (0.47–0.84) |
cg25340688* | 5 | 135,416,398 | 0.79 (0.21–0.96) | 0.99 (0.66–1) | 0.85 (0.47–0.95) | 0.65 (0.36–0.83) | 0.50 (0–0.88) | 0.7 (0.47–0.84) |
cg26896946* | 5 | 135,416,405 | 0.82 (0.29–0.97) | 0.55 (0–0.96) | 0.76 (0.29–0.93) | 0.68 (0.4–0.84) | 0.31 (0–0.81) | 0.72 (0.53–0.85) |
cg00124993* | 5 | 135,416,412 | 0.82 (0.21–0.96) | 0.96 (0.13–1) | 0.87 (0.55–0.97) | 0.71 (0.45–0.86) | 0.64 (0–0.92) | 0.73 (0.52–0.86) |
cg18797653* | 5 | 135,416,613 | 0.89 (0.54–0.97) | 0 (0–0.87) | 0.89 (0.59–0.97) | 0.50 (0.14–0.74) | 0.76 (0.14–0.95) | 0.56 (0.25–0.75) |
cg09483595* | 5 | 158,878,381 | 0.98 (0.91–1) | 0.71 (0–0.98) | 0.92 (0.68–0.98) | 0 (0–0.4) | 0.61 (0–0.91) | 0.94 (0.88–0.97) |
cg13373914 | 7 | 67,323,067 | 0.12 (0–0.74) | 1.00 (0.94–1) | 0.90 (0.63–0.98) | |||
cg05141217 | 8 | 28,491,379 | 0.96 (0.80–0.99) | 1.00 (0.9–1) | 0.97 (0.87–0.99) | |||
cg26708920 | 10 | 13,826,318 | 0.94 (0.72–0.99) | 0.96 (0.01–1) | 0.96 (0.86–0.99) | |||
cg20054939* | 12 | 133,614,314 | 0.66 (0–0.92) | 0 (0–0) | 0.08 (0–0.63) | 0 (0–0.41) | 0 (0–0.72) | 0 (0–0.36) |
cg20124410 | 13 | 107,333,224 | 0.58 (0–0.9) | 0 (0–0.87) | 0.32 (0–0.73) | |||
cg10829391 | 14 | 101,069,717 | 0.95 (0.75–0.99) | 0.59 (0–0.97) | 0.87 (0.57–0.97) | |||
cg26748794* | 16 | 88,804,052 | 0.97 (0.84–0.99) | 0.59 (0–0.97) | 0.89 (0.63–0.97) | 0.67 (0.41–0.83) | 0.69 (0.01–0.92) | 0.67 (0.41–0.83) |
cg20443278* | 17 | 77,962,099 | 0.62 (0–0.91) | 0.78 (0–0.99) | 0.96 (0.85–0.99) | 0 (0–0.38) | 0.24 (0–0.8) | 0.83 (0.67–0.91) |
cg14150973* | 19 | 40,950,432 | 0 (0–0.67) | 0 (0–0.88) | 0 (0–0.54) | 0 (0–0.39) | 0 (0–0.65) | 0 (0–0.35) |
cg17884856* | 20 | 44,334,913 | 0.93 (0.69–0.99) | 0.84 (0–0.99) | 0.88 (0.59–0.97) | 0.89 (0.79–0.95) | 0.05 (0–0.68) | 0.59 (0.32–0.78) |