Table 1.

Summary statistics of copy number changes among 1413 SNPs that are near 1413 CpGs interrogated by GoldenGate, cross-classified by the detection P-value reported by Illumina for the nearby CpG

		Det P≥0.05	Det P<0.05	% (Det P≥0.05)
HNSCC (18 tumors with R>0.99)	0 copies	0	0	N/A
	1 copy	7	858	0.8
	2 copies	122	23 429	0.5
	3 copies	2	919	0.2
	4 copies	0	97	0.0
HNSCC (1 tumor with R=0.82)	0 copies	3	5	37.5
	1 copy	10	195	4.9
	2 copies	11	958	1.1
	3 copies	0	148	0.0
	4 copies	0	83	0.0
Meso-thelioma (23 tumors)	0 copies	2	4	33.3
	1 copy	10	2657	0.4
	2 copies	39	28 522	0.1
	3 copies	1	1253	0.1
	4 copies	0	11	0.0