Table 3. Correlation between FFPE-FF sample pairs.

		Number of Probes
	Sample pairs	1,432 P<0.01	2,530 P<0.05	3,351P<0.10	24,526 P N.A
1	Breast Ca. 1	0.78	0.70	0.66	0.57
2	Breast Ca. 2	0.88	0.84	0.83	0.81
3	Breast Ca. 3	0.94	0.93	0.92	0.90
4	Breast Ca. 4	0.87	0.83	0.81	0.76
5	Breast Ca. 5	0.92	0.88	0.87	0.82
6	Breast Ca. 6	0.86	0.82	0.81	0.76
7	Breast Ca. 7	0.90	0.86	0.85	0.81
8	Breast Ca. 8	0.81	0.80	0.80	0.90
9	Breast Ca. 9	0.99	0.99	0.99	0.99
10	Breast Ca. 10	0.84	0.80	0.78	0.79
11	Brain meta. lung Ca. 1	0.86	0.83	0.81	0.76
12	Brain meta. Lung Ca. 2	0.85	0.80	0.78	0.75
13	Brain meta. Lung Ca. 3	0.76	0.72	0.72	0.74
14	Brain meta. Lung Ca. 4	0.86	0.84	0.83	0.81
15	Brain meta. colon Ca. 1	0.90	0.87	0.86	0.82
16	Brain meta. colon Ca. 2	0.79	0.73	0.70	0.55
17	Brain meta. kidney Ca. 1	0.88	0.84	0.83	0.74
18	Brain meta. kidney Ca. 2	0.83	0.78	0.77	0.67
19	Brain meta. kidney Ca. 3	0.90	0.86	0.85	0.77
20	Brain meta. prostate Ca.	0.87	0.85	0.83	0.73
21	Brain meta. oesophagus Ca.	0.84	0.79	0.78	0.69
22	Brain meta. Leiomyosarcoma	0.74	0.66	0.63	0.55
23	Brain meta. ovarian Ca.	0.83	0.80	0.78	0.75
24	Brain meta. endometrium Ca.	0.87	0.83	0.81	0.76
25	Brain meta. ACUP	0.83	0.79	0.78	0.75
26	Breast cell-line [MDA-MB-231]	0.96	0.96	0.96	0.93
27	Breast cell-line [SKBR3]	0.95	0.94	0.94	0.90
Number of matched pairs following unsupervised hierarchical clustering		25/27	21/27	19/27	1/27

Rows 1 through 27 represent the paired samples of which the FFPE and FF parts were separately run on the Illumina WG-DASL V3 platform. The right four columns show the Spearman rank correlation coefficients between the expression values of the FF and FFPE materials for the distinct P-values (0.01; 0.05; 0.10 and N.A. = Not Applicable). The upper row shows the numbers of probes included for the distinct levels of significance. The number of matched pairs following unsupervised hierarchical clustering is shown in the bottom row.