Profiling of immune related genes silenced in EBV-positive gastric carcinoma identified novel restriction factors of human gammaherpesviruses
Fig 3
DNA hypermethylation and down-regulation of MT1 and HOXA gene clusters in EBVaGC.
(A, E) Heat map showed the beta value of each CpG probe located within MT1 (A) and HOXA (E) gene clusters. EBV-negative GC samples (n = 25), upper panel; EBVaGC samples (n = 23), lower panel. (B, F) Normalized mRNA expression of MT1 (B) and HOXA (F) genes was compared between EBVaGC and non-EBV GC samples. Results were based on n = 23 and 25 samples, for EBVaGC and non-EBV respectively, and presented as mean ± SEM, (* p<0.05; ** p<0.01; *** p<0.001, Wilcoxon signed-rank test). (C, G) Box plot showed the distribution of beta values for all CpG probes located within MT1 (C) and HOXA (G) gene cluster in EBVaGC and non-EBV GC samples. Results were based on n = 23 (EBV +) and 25 (EBV -) samples and presented as mean ± S.D. (* p<0.05; ** p<0.01; *** p<0.001, Wilcoxon signed-rank test). (D, H) Correlation plot showed the inverse relationship between mRNA expression and methylation beta values for MT1 (D) and HOXA (H) gene clusters. P-value and Pearson’s correlation coefficient are indicated.
