Identifying Protein Complexes from Dynamic Temporal Interval Protein-Protein Interaction Networks

Table 8

Proportion of the complexes enriched significantly by BP term-annotated proteins.

Yeast expression data sets	Yeast PPI data sets	Methods	#IC	#SC	% of significant (size≤6)	% of significant (6<size<20)	% of significant (size≥20)
GSE3431	STRING	ICJointLE-DPN	5137	4873	93.33%	100.00%	100.00%
		Zhang’s method	1117	1013	88.56%	100.00%	100.00%
		DPC-NADPIN	6464	6439	98.88%	99.94%	100.00%
		TS-OCD	1175	1157	97.26%	100.00%	100.00%
		DCA	1261	1261	100.00%	100.00%	100.00%
	BioGrid	ICJointLE-DPN	4896	4559	90.69%	100.00%	100.00%
		Zhang’s method	1074	974	88.73%	100.00%	100.00%
		DPC-NADPIN	5437	5420	99.16%	100.00%	100.00%
		TS-OCD	1784	1749	96.56%	100.00%	100.00%
		DCA	1201	1199	98.45%	100.00%	100.00%
	DIP	ICJointLE-DPN	4398	4118	91.42%	100.00%	100.00%
		Zhang’s method	836	725	85.18%	100.00%	100.00%
		DPC-NADPIN	3019	3007	99.24%	100.00%	100.00%
		TS-OCD	439	434	98.50%	100.00%	100.00%
		DCA	595	595	100.00%	100.00%	100.00%
GSE4987	STRING	ICJointLE-DPN	12283	11913	95.34%	99.97%	100.00%
		Zhang’s method	1863	1712	89.36%	100.00%	100.00%
		DPC-NADPIN	4509	4498	99.45%	100.00%	100.00%
		TS-OCD	2302	2266	97.26%	100.00%	100.00%
		DCA	3212	3204	98.84%	99.94%	100.00%
	BioGrid	ICJointLE-DPN	10558	10100	93.25%	100.00%	100.00%
		Zhang’s method	1821	1660	88.75%	100.00%	100.00%
		DPC-NADPIN	3657	3641	99.15%	100.00%	100.00%
		TS-OCD	3354	3295	97.12%	100.00%	100.00%
		DCA	2686	2678	98.46%	99.60%	100.00%
	DIP	ICJointLE-DPN	8745	8359	92.86%	100.00%	100.00%
		Zhang’s method	1343	1177	85.76%	100.00%	100.00%
		DPC-NADPIN	6464	1668	99.66%	100.00%	100.00%
		TS-OCD	734	721	97.68%	100.00%	100.00%
		DCA	1269	1266	99.27%	100.00%	100.00%