Table 2.

Frequency and median PMR values of mesothelioma and non-tumor lung tissues for 28 loci

Locus1	MM2 (n=52)		NTL5(n=38)			p-value6	MC
	Frequency(%)3	Median PMR4	Frequency3(%)	Median PMR4	Locus1	MM vs NTL	Threshold7
APC	58	0.36	94	4.84	APC	<.0001	n.a.
ATM	37	0.01	59	0.16	ESR18	0.0002	n.a.
CDH1	98	4.33	82	12.7	CDH1	0.0143	n.a.
CDH13	65	2.91	37	5.45	PGR	0.0848	n.a.
CDKN2AEX2	100	43.8	96	43.3	CDKN2B	<.0001	0.0021
CDKN2B	98	5.43	96	9.66	ATM	0.0001	0.0023
CDX28	86	7.11	66	3.40	SYK	0.0003	0.0025
CHFR	13	0.04	4	1.65	SLC6A20	0.0022	0.0027
CYP1B1	27	1.66	24	0.44	HOXA1	0.0033	0.0030
ESR18	71	3.29	32	1.29	CDX28	0.0091	0.0033
HMGA18	6	0.00	18	0.02	LZTS1	0.0098	0.0037
HOXA1	63	0.43	63	3.82	MT2A	0.0685	0.0042
LZTS1	100	133	100	183	CDH13	0.1006	0.0047
MGMT	13	1.75	14	9.22	RASSF18	0.1421	0.0053
MT1A	100	134	100	110	SFRP58	0.1971	0.0061
MT2A	100	11.0	71	12.2	SFRP18	0.1985	0.0071
OPCML	94	6.19	69	9.20	PTEN	0.2562	0.0083
PGR	27	4.28	4	6.95	MT1A	0.2701	0.0099
PTEN	15	0.05	20	0.85	HMGA18	0.2736	0.0120
RASSF18	57	32.4	58	0.86	CDKN2AEX2	0.3776	0.0148
SFRP18	88	4.39	87	10.01	OPCML	0.5029	0.0188
SFRP48	37	0.65	42	1.03	CHFR	0.5455	0.0245
SFRP58	98	4.08	92	5.78	MGMT	0.5482	0.0333
SLC6A20	46	6.60	10	0.41	VHL	0.7562	0.0480
SOCS48	12	1.60	13	1.70	SOCS48	0.9174	0.0500
SYK	67	0.22	22	0.43	CYP1B1	0.8831	0.0500
TWIST1	75	3.25	53	7.45	SFRP48	0.5671	0.0500
VHL	4	0.90	0	0.00	TWIST	0.6444	0.0500

¹HUGO nomenclature (on right loci are listed alphabetically by p-value, with previously identified loci at the top);

²MM: malignant mesothelioma;

³percentage of samples with positive methylation values;

⁴median percent methylated reference calculated from positive methylation values;

⁵NTL: non-tumor lung;

⁶p-value calculated using Mann-Whitney U test;

⁷MC threshold: multiple comparison p-value threshold according to Benjamini et al.[40]. This threshold was not applied to the four loci for which previous research suggested significant differences between MM and non-tumor lung;

⁸MM n=51