Fig. 4

Association of ST14 methylation with hormone receptor status (HS) positivity in TCGA and GSE75067. a Mean GAM between positive and negative HS. Both datasets showed a significant difference of GAM, with a higher GAM observed in HS-positive breast cancers (p < 0.001). b Unsupervised hierarchical clustering for CpG probes and the HS. The β-value is indicated by the color bar in the upper-right corner; a positive HS is in pink and negative HS is in cyan. c Vertical bar plots for CpG probes with non-zero least absolute shrinkage and selection operator (LASSO) coefficients for TCGA (left panel) and GSE75067 (right panel). d Plot of recursive feature elimination (RFE) classification accuracy for the HS with probe numbers for TCGA (left panel) and GSE75067 (right panel). The selected probe set showed the highest accuracy. In TCGA, 16 CpG probes were selected, whereas 22 probes were selected in GSE75067. e CpG probes selected by LASSO and RFE in both datasets. The methylation status is defined by the median split for each probe. The percentage of positive HS is plotted against each selected probe with high and low methylation status. Significance of the difference is indicated by a star (Chi-square test p < 0.05)