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Fig. 1 | Genome Biology

Fig. 1

From: Revisiting genetic artifacts on DNA methylation microarrays exposes novel biological implications

Fig. 1

Overview of Illumina DNA methylation microarray probe design and general principles of UMtools. A Probe design and details on how DNA methylation ratios are quantified per Infinium probe type (type IR, type IG, or type II). B Correspondence between DNA methylation ratio (U/(U + M)), U/M plots, and CVlogT (≈ σlog(U + M)log(U + M)) scales. DNA methylation ratio distribution is plotted as a kernel density estimation C U/M plot for a representative example of a 450K control probe targeting a high MAF bi-allelic SNP. Three clusters are formed corresponding to heterozygotes and homozygotes for each allele. D U/M plot for representative examples of sex chromosome-targeting probes. Males and females are highlighted in blue and pink, respectively

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