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Table 1 Spatial relationships between genomic intervals of top DMRs and selected genomic features

From: High cortisol in 5-year-old children causes loss of DNA methylation in SINE retrotransposons: a possible role for ZNF263 in stress-related diseases

   Hypomethylated (n = 507) Hypermethylated (n = 345)
Statistical concept Interpretation SINE LINE LTR DNAt snRNA Low CpGi Genes SINE LINE LTR DNAt snRNA Low CpGi Genes
Reference population Number entities within each class 1769839 1480369 708210 456948 4285 367822 27718 23033 1769839 1480369 708210 456948 4285 367822 27718 23033
Relative KS p-value Relative relationship between interval midpoints <0.05 n.s. n.s. n.s. n.s. <0.1 n.s. <0.1 <0.0001 <0.01 n.s. n.s. n.s. <0.05 n.s. n.s.
  Type of relationship Positive Negative Positive Positive Negative Negative
Jaccard Measure p-value Ovelaps between intervals < 0.0001 <0.01 <0.1 n.s. n.s. <0.05 n.s. <0.0001 <0.0001 <0.001 n.s. n.s. n.s. n.s. n.s. <0.1
  Type of overlap Positive Negative Positive Negative Positive Positive Negative Positive
  1. Test statistics were obtained using the GenometriCorrelation package in R/Biocunductor. For more information about the different tests see Favorov et al. 2012. Both KS (Kolmogorov-Smirnov) and Jaccard Measure p-values were obtained by permuting the obeserved results 10 000 times over the human genome. SINE Short interspersed nuclear elements, LINE Long interspersed nuclear elements, LTR Long terminal repeats, DNAt DNA transposon, snRNA Short nuclear RNA repeats, Low Low complexity DNA, CpGi CpG island