Figure 5

Relative expression and methylation of PRC2 target genes derived from ES and MDA-MB-231 HOTAIR cells. PRC2 targets identified by Lee et al. in (a to c) ES cells [28] and Gupta et al. [29] by over-expressing HOTAIR in (d to f) MDA-MB-231 cells, and present in our gene expression data set or methylation panel, respectively, were used. (a and d) Average relative expression levels of PRC2 target genes. Basal-like and lumB tumours both have low expression of these genes compared with the other subtypes. P-values were calculated using analysis of variance. (b and e) Average relative methylation levels of PRC2 target genes. Low methylation levels are found in basal-like tumours while lumB tumours display high levels of methylation of these CpG sites. P-values were calculated using t-test between basal-like and lumB tumours. (c and f) Average relative methylation levels for PRC2 target genes compared with other genes for basal-like and lumB tumours. P-values were calculated using t-test. The number of tumours in each subtype is shown at the top.