Integrative network analysis of TCGA data for ovarian cancer

BMC Systems Biology

Table 7 Simulation I results

p	\|E\|	β	N	P	TPR (skeleton)	FDR (skeleton)
50	100	0.5	500	46.0	0.298 (0.410)	0.468 (0.152)
			1000	63.2	0.420 (0.627)	0.333 (0.063)
			2000	78.4	0.600 (0.783)	0.273 (0.032)
		1	500	78.2	0.550 (0.740)	0.294 (0.051)
			1000	92.8	0.676 (0.910)	0.265 (0.019)
			2000	98.4	0.781 (0.960)	0.236 (0.017)
100	200	0.5	500	110.6	0.260 (0.400)	0.528 (0.272)
			1000	124.2	0.328 (0.557)	0.484 (0.104)
			2000	168.4	0.590 (0.825)	0.291 (0.019)
		1	500	163.2	0.539 (0.735)	0.349 (0.098)
			1000	167.8	0.614 (0.892)	0.347 (0.018)
			2000	194.4	0.768 (0.959)	0.216 (0.010)
200	400	0.5	500	252.6	0.225 (0.358)	0.647 (0.444)
			1000	272.8	0.383 (0.597)	0.438 (0.132)
			2000	326.4	0.546 (0.791)	0.337 (0.031)
		1	500	347.2	0.535 (0.825)	0.377 (0.073)
			1000	364.8	0.583 (0.872)	0.359 (0.044)
			2000	396.4	0.698 (0.963)	0.294 (0.028)

Presented in the table are the average number of predicted edges (P), true positive rate (TPR) and false discovery rate (FDR) for both directed and undirected (skeleton) edges over 10 replicated samples in each setting (p |E|, β, N). The number of edges |E| is set to be 2p.

ISSN: 1752-0509