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Table 1 Analysis of methylation regions using current methods (40 samples)

From: Redundancy analysis allows improved detection of methylation changes in large genomic regions

Region size Sim. DMP % Diff. Means CpGs in Bumps (%) R2 (sd)
Target region Random region
500Kb 30 0.3 28.10 0.647 (0.109) 0.026 (0.010)
30 0.1 3.23 0.430 (0.098) 0.025 (0.010)
30 0.05 0.21 0.346 (0.124) 0.026 (0.010)
10 0.3 9.16 0.442 (0.075) 0.024 (0.008)
10 0.1 0.45 0.277 (0.101) 0.026 (0.009)
10 0.05 0.02 0.205 (0.135) 0.025 (0.008)
300Kb 30 0.3 28.10 0.674 (0.113) 0.026 (0.013)
30 0.1 3.76 0.417 (0.083) 0.025 (0.008)
30 0.05 0.11 0.332 (0.127) 0.026 (0.011)
10 0.3 8.80 0.446 (0.084) 0.026 (0.009)
10 0.1 0.30 0.278 (0.100) 0.026 (0.010)
10 0.05 0.02 0.178 (0.112) 0.026 (0.011)
100Kb 30 0.3 27.80 0.682 (0.125) 0.025 (0.011)
30 0.1 3.58 0.430 (0.103) 0.026 (0.011)
30 0.05 0.15 0.317 (0.122) 0.026 (0.011)
10 0.3 8.72 0.453 (0.104) 0.027 (0.014)
10 0.1 0.35 0.249 (0.112) 0.025 (0.010)
10 0.05 0.00 0.171 (0.123) 0.025 (0.011)
50Kb 30 0.3 27.70 0.705 (0.120) 0.027 (0.012)
30 0.1 3.93 0.426 (0.096) 0.027 (0.012)
30 0.05 0.10 0.308 (0.096) 0.026 (0.010)
10 0.3 8.60 0.442 (0.120) 0.028 (0.017)
10 0.1 0.42 0.250 (0.100) 0.026 (0.013)
10 0.05 0.03 0.149 (0.090) 0.028 (0.015)
  1. Values represent the mean of the 200 simulations. Sim. DMP %, percentage of DMPs introduced in the simulation; Diff. Means, Difference in mean methylation between groups A and B; CpGs in Bumps (%), proportion of CpGs in the modified region that are within a bump with FDR < 0.05. R 2, R2 estimate of RDA model; Target region, region that includes our simulated DMPs; Random region, region without any of the simulated DMPs