Detecting conserved protein complexes using a dividing-and-matching algorithm and unequally lenient criteria for network comparison

Table 5 Comparison of different methods in terms of how well matching with known protein based one AlignNemo’s dataset

Methods	PC	MPC	MKC	Recall	Precision	F-measure	CR	PM
Yeast-fly
UEDAMAlignCFinder (k = 4)	126	62	66	0.1535	0.4921	0.234	0.1682	2
UEDAMAlignCMC	127	57	74	0.1458	0.4488	0.2201	0.2208	0
UEDAMAlignCoach	1,019	190	134	0.4095	0.1865	0.2562	0.288	0
UEDAMAlignknowncomplex	160	158	184	0.4136	0.9875	0.583	0.3745	47
UEDAMAlignMCL	697	113	115	0.2783	0.1621	0.2049	0.2365	4
AlignNemo	243	77	53	0.1782	0.3169	0.2281	0.1755	0
AlignMCL	523	95	97	0.234	0.1816	0.2045	0.2224	5
Human-fly
UEDAMAlignCFinder (k = 4)	116	42	67	0.0264	0.3621	0.0493	0.0451	1
UEDAMAlignCMC	288	62	101	0.0394	0.2153	0.0666	0.1251	1
UEDAMAlignCoach	2,978	432	281	0.2449	0.1451	0.1822	0.1945	0
UEDAMAlignknowncomplex	333	326	552	0.235	0.979	0.3791	0.2634	34
UEDAMAlignMCL	679	103	219	0.0688	0.1517	0.0947	0.1459	2
AlignNemo	114	31	48	0.0194	0.2719	0.0363	0.0628	0
AlignMCL	732	97	254	0.0666	0.1325	0.0887	0.2012	2

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