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Table 4 Methylation in imprinted genes by tumor location and histology

From: DNA methylation analysis reveals distinct methylation signatures in pediatric germ cell tumors

  Females Males
Average Methylation1 YST Germinoma Teratoma YST Teratoma
    Ovarian Extragonadal   
  N2 (%) N2 (%) N2 (%) N2 (%) N2 (%) N2 (%)
  Paternal Allele Methylated     
H19 CTCF3       
< 33% 2 (25) 4 (67) 9 (90) 1 (12) 2 (50) 1 (25)
33-66% 6 (75) 2 (33) 1 (10) 7 (88) 1 (25) 3 (75)
> 66% 0 0 0 0 1 (25) 0
     0.003   
H19 CTCF6       
< 33% 4 (50) 5 (83) 9 (90) 2 (29) 2 (50) 3 (75)
33-66% 4 (50) 1 (17) 1 (10) 5 (71) 2 (50) 1 (25)
> 66% 0 0 0 0 0 0
     0.04   
IGF2       
< 33% 2 (29) 4 (67) 8 (80) 1 (12) 0 0
33-66% 5 (71) 2 (33) 2 (20) 7 (88) 4 (100) 4 (100)
> 66% 0 0 0 0 0 0
     0.02   
  Maternal Allele Methylated     
KvDMR       
< 33% 2 (25) 4 (67) 0 3 (37) 3 (75) 1 (25)
33-66% 6 (75) 2 (33) 2 (20) 5 (63) 0 3 (75)
> 66% 0 0 8 (80) 0 1 (25) 0
     <0.0001   
PEG3       
< 33% 0 6 100) 0 1 (12) 0 0
33-66% 6 (75) 0 1 (10) 7 (88) 1 (33) 4 (100)
> 66% 2 (25) 0 9 (90) 0 2 (67) 0
     <0.0001   
SNRPN       
< 33% 3 (38) 6 (100) 1 (10) 2 (25) 4 (100) 0
33-66% 5 (62) 0 0 6 (75) 0 4 (100)
> 66% 0 0 9 (90) 0 0 0
     <0.0001   
  1. 1Categories represent three methylation states based on the average percent methylation across all CpG loci analyzed in the DMR: <33% (hypomethylation), 33-66% (median methylation), and >66% methylation (hypermethylation).
  2. 2 N’s do not sum to total due to missing data.