Additional file 15: Figure S8. of Guanylate-binding protein-1 is a potential new therapeutic target for triple-negative breast cancer

Analysis of Infinium HumanMethylation450 BeadChip methylation array from 876 TCGA samples, including TNBC, Non-TNBC and normal tissues. (A) Raw Kernel density plot from β methylation ratios (methylated / total signal) for each category (TNBC, Non-TNBC or normal tissue). (B) Quantile normalized Kernel density plot of β methylation ratios, as implemented by wateRmelon [55]. (C) Quantile normalized Kernel density plot of M-Values (Logit transformation of β normalized ratios), showing the peaks alignment. Volcano plot of the FC and adjusted p-values of the methylation probes in TNBC vs Non-TNBC (D) and TNBC vs normal (E) comparisons. Non-differentially methylated (DM) probes (or differentially methylated one but with p-value >0.05) are shown as gray circles. DM probes are shown as blue circles when hypermethylated and red circles when hypomethylated. Probes with a FC ≥ +2 or an FC ≤ −2, with an FDR