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

BMC Cancer

Table 2 Top 23 genes with differential methylation in YST

CpG Locus	Effect size^a	q-value	Δ beta YST1^b	Δ beta YST2^b
*HLA* . F _ *E402* _ F	3.69	<2.2E-16	0.86	0.81
*WT1* _ *E32* _ F	3.41	<2.2E-16	0.86	0.83
*RASSF1* _ *E116* _ F	3.16	<2.2E-16	0.87	0.79
*CYP1B1* _ *E83* _ R	3.13	<2.2E-16	0.74	0.54
*CCNA1*_E7_F	3.13	<2.2E-16	0.67	0.78
*SLC22A3*_E122_R	3.12	<2.2E-16	0.82	0.74
*SCGB3A1*_E55_R	3.05	<2.2E-16	0.80	0.77
*HOXA9*_E252_R	2.99	<2.2E-16	0.78	0.76
*TFAP2C*_E260_F	2.98	<2.2E-16	0.81	0.71
*FGF3*_P171_R	2.96	<2.2E-16	0.78	0.75
*PDGFRB*_P343_F	2.95	<2.2E-16	0.67	0.55
*NPY*_P295_F	2.92	<2.2E-16	0.81	0.75
*ASCL2*_P360_F	2.90	<2.2E-16	0.82	0.70
*LRRC32*_P865_R	2.90	<2.2E-16	0.81	0.44
*CDK10*_E74_F	2.88	<2.2E-16	0.83	0.65
*HFE*_E273_R	2.87	<2.2E-16	0.80	0.75
*SOX1*_P294_F	2.86	<2.2E-16	0.79	0.70
*TAL1*_P594_F	2.83	<2.2E-16	0.78	0.73
*RASGRF1*_E16_F	2.80	<2.2E-16	0.64	0.73
*WT1*_P853_F	2.79	<2.2E-16	0.78	0.73
*HLF*_E192_F	2.77	<2.2E-16	0.80	0.75
*GUCY2D*_E419_R	2.75	<2.2E-16	0.83	0.06
*HS3ST2*_E145_R	2.75	<2.2E-16	0.84	0.79

^a Indicates the adjusted fold change in the β value in the YST compared with the other histologic subtypes of GCT.
^b Indicates the change in the β value in the tumor sample compared to the paired normal adjacent in the two YST with available normal tissue.

ISSN: 1471-2407