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Table 1 Summary of methylation vs expression changes across feature types

From: Divergent neuronal DNA methylation patterns across human cortical development reveal critical periods and a unique role of CpH methylation

Feature Meth. type Direction N N unique C N unique features Mean N Meth. > 0 Mean N Meth. < 1 Mean Expr change Prop. age confounded FDR ≥ 5% Prop. in promoter Prop. in gene body Prop. in gene flanking Prop. CHG Prop. CHH Prop. DE glia Prop. DE neuron Prop. No Diff
Gene CpG Down 18,458 18,353 2074 21.9 21.9 1.39 0.0932 0.0671 0.966 0.906 0 0 0.126 0.329 0.546
Up 5217 5021 1743 21.8 21.8 1.69 0.0845 0.0571 0.979 0.92 0 0 0.304 0.193 0.503
CpH Down 25,812 25,712 1611 21.1 21.1 1.4 0.115 0.0161 0.519 0.75 0.22 0.781 0.0912 0.413 0.496
Up 3842 3840 846 20.1 20.1 1.66 0.2 0.0219 0.532 0.807 0.26 0.744 0.123 0.27 0.607
Exon CpG Down 9505 4536 4168 21.9 21.9 1.23 0.104 0.19 0.934 0.991 0 0 0.0097 0.0256 0.965
Up 1328 638 687 21 21 1.93 0.191 0.175 0.928 0.988 0 0 0.0369 0.0136 0.95
CpH Down 7874 4082 3458 21.1 21.1 1.72 0.074 0.0328 0.437 0.927 0.19 0.814 0.0086 0.0451 0.946
Up 1288 733 962 18.7 18.7 1.94 0.154 0.0435 0.481 0.918 0.28 0.722 0.0031 0.0311 0.966
PSI CpG Down 4286 2477 1315 21.7 21.7 0.124 0.0272 0.0434 0.994 0.936 0 0 0.242 0.212 0.547
Up 5782 3915 1646 21.8 21.8 0.121 0.0195 0.0398 0.991 0.919 0 0 0.261 0.222 0.517
CpH Down 1296 945 489 16.8 16.8 0.447 0.0201 0.0274 0.537 0.676 0.36 0.644 0.187 0.286 0.526
Up 875 536 391 16.5 16.5 0.169 0.032 0.0279 0.559 0.775 0.36 0.637 0.194 0.33 0.477
  1. Mean values are shown for the number of samples with β > 0, β < 1, and expression change variables (either ΔPSI or Δlog2(FPKM + 1) for genes and exons). Columns from “Age confounded” are proportions. See Additional file 2: Table S12 for a full description of the variables