Empirical Bayes Model Comparisons for Differential Methylation Analysis
Figure 2
Differentially methylated CpG islands before and after cisplatin treatment identified by empirical Bayes models. Scatter plots of the logarithmically transformed DNA methylation intensities before and after 1, 3, and 5 cell divisions of cisplatin-treated A2780 cells, in which the x-axis represents the parental A2780 cell line and the y-axis represents the cisplatin-treated A2780 progeny sublines. Rows 1, 2, and 3 represent the A2780 sublines following 1, 3, and 5 cell divisions coincident to treatment with the DNA crosslinking agent cisplatin. Columns 1, 2, 3, 4, and 5 represent binary-gamma-gamma (BGG) model, binary-normal-gamma-gamma (BNGG) model, binary-normal-normal-gamma-gamma (BNNGG) model, binary-log-normal-normal (BLNN) model, and binary-log-normal-normal-normal (BLNNN) model, respectively. Red, blue, and green represent the differentially methylated CpG islands (), not determined differentially methylated or not () and not differentially methylated CpG islands ().
