Table 2 List of the genes identified as differentially methylated and differentially expressed between cell lines that were also differentially expressed in the same way in primary seminoma and non-seminoma tumour samples²²

From: Genome-wide methylation analysis identifies genes silenced in non-seminoma cell lines

A. Seminoma versus YST
Gene	Noor (2015)	Korkola et al.²¹	Palmer et al.²²
EPCAM	561.2	0.4	0.4
TACSTD2	448.8	0.1	0.9
GGCT	120.4	1.0	1.5
F2RL1	106.1	0.9	0.8
TDRD12	84.4	8.5	8.0
FABP5	65.7	1.4	0.5
HSPA2	50.7	0.9	0.9
SOX17	48.7	0.8	0.6
RBMXL2	43.5	2.3	1.4
BASP1	42.0	0.8	1.3
DDX43	37.3	3.6	3.9
KLF4	29.9	5.9	7.2
LGALS3	28.1	0.8	1.6
ESRP2	27.7	0.3	0.5
CYB5R2	18.2	1.1	1.0
OXCT1	17.2	1.2	1.9
HIST1H4C	17.1	1.5	0.9
CLDN7	15.2	0.4	0.2
ALDH1A3	14.6	1.4	0.4
ECHDC3	14.5	0.9	1.8
TRIL	14.4	1.9	1.4
TMEM168	14.2	1.4	2.2
CXCL14	13.0	2.7	5.1
DSCR6	10.2	0.5	0.2
GPX7	9.6	1.0	1.0
FAM184A	9.4	0.4	0.5
ECHDC2	9.2	0.5	0.9
IER2	9.0	1.0	1.5
GUCA1A	7.5	1.8	1.2
LGALS8	7.4	0.6	0.9
ST14	6.7	0.7	0.5
MAPK13	6.3	0.5	0.8
LMO7	6.2	0.6	0.8
OVOL1	6.2	0.8	0.8
LY75	6.0	3.5	3.4
CYB5R1	5.6	1.0	1.3
GIPC2	5.6	0.6	0.8
EPS8L2	5.5	0.4	0.4
CST6	4.8	0.8	1.2
PKP3	4.7	0.4	0.3
ALX1	4.6	1.0	0.8
PARP12	4.3	3.9	2.6
BST1	4.3	1.5	1.5
CYP1B1	4.3	1.0	1.8
MNS1	3.6	1.0	1.0
SOX15	3.5	5.9	3.3
MTL5	3.5	0.8	0.8
MYD88	3.3	1.0	0.9
PRDM14	3.2	1.6	1.2
MEIS1	3.2	0.5	0.4
TNFRSF10C	3.1	0.9	1.0
TRIM25	3.1	1.0	0.9
PON3	3.0	1.6	4.9
PLXND1	3.0	1.0	0.9
RPRM	3.0	2.3	2.4
LTBP2	2.9	1.1	0.6
FUT1	2.8	1.1	1.0
SLC25A38	2.8	0.8	0.8
EPS8L1	2.6	0.8	0.7
ARPC1B	2.6	2.3	2.9
EDNRB	2.6	0.9	0.9
TEAD3	2.5	0.6	0.7
ACADL	2.5	1.1	0.9
TUBB6	2.5	0.9	0.6
ZMIZ1	2.4	1.6	1.1
ABHD14A	2.2	0.8	0.9
ELMO3	2.2	0.8	0.7
AMPD3	2.1	1.1	1.3
LRRFIP1	2.0	1.3	1.2
ZIC1	2.0	0.5	0.7
SH2D3A	1.6	1.0	1.0
NAAA	1.5	1.1	1.1

B. Seminoma versus EC
Gene	Noor (2015)	Korkola et al.²¹
TACSTD2	322.3	0.3
NUDT15	96.1	0.6
RBMXL2	52.8	1.6
HSPA2	35.6	0.6
DDX43	32.4	2.1
TDRD12	27.3	5.3
UCP2	24.6	0.8
MGLL	18.4	0.6
CRIP1	15.5	1.1
RPL39L	13.4	1.4
CHODL	12.1	1.2
MGMT	10.4	1.2
CYB5R2	8.5	0.9
CYP2R1	8.0	1.6
KRT7	7.6	0.6
PRKCH	6.0	0.6
MAPK13	6.0	0.8
CNTLN	5.8	1.2
CXCR7	5.7	0.4
CTSO	5.0	0.7
ST14	5.0	0.8
BST1	4.6	1.3
GREM2	4.5	0.9
DMRT1	4.4	5.1
SLC7A4	3.9	1.3
LTBP2	2.8	0.4
KDELR3	2.6	0.6
PON3	2.5	2.3

C. Seminoma versus teratoma
Gene	Noor (2015)	Korkola et al.²¹
TACSTD2	438.9	0.0
DDX43	43.7	4.5
RBMXL2	42.8	2.2
ME1	35.4	0.5
RBM12B	21.9	1.2
QPCT	20.4	0.6
PRKCH	14.7	0.7
CAT	12.9	0.4
GALNT3	12.7	0.2
ECHDC2	8.9	0.6
PKP3	6.7	0.6
ST14	6.7	0.5
GREM2	4.9	0.5
SOX15	3.8	5.3
EDNRB	3.1	0.4
PON3	2.9	1.6
CYP1B1	2.5	0.3
EPS8L1	2.5	0.8
SULT1A1	2.5	1.0
LPHN3	2.3	0.7
VAV1	2.3	1.1
TEAD3	2.2	0.7
ELMO3	2.0	0.8

Abbreviations: EC, embryonal carcinoma; YST, yolk sac tumour.
The ‘fold change’ column is the fold change in expression seen between the seminoma and non-seminoma cell lines in our study. The ‘Korkola fold change’ and ‘Palmer fold change’ are the difference in expression seen in primary tumours in the studies by Korkola et al.²¹ and Palmer et al.²² Only genes for which data were available in all data sets are shown. Genes where expression in seminoma cells is at least 1.5-fold greater than in the non-seminoma cells are in bold.

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Table 2 List of the genes identified as differentially methylated and differentially expressed between cell lines that were also differentially expressed in the same way in primary seminoma and non-seminoma tumour samples²²

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