Algorithms for Molecular Biology

Table 1 The basic information of results of different methods

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

Method	Yeast-fly
	Conserved pairs	Yeast		Fly
	Conserved pairs	Distinct complex (size ≥2)	Avg size	Distinct complex (size ≥2)	Avg size
UEDAMAlignCFinder (k=4)	129	129	7.48	129	10.72
UEDAMAlignCMC	128	128	9.65	128	12.89
UEDAMAlignCoach	725	725	5.84	723	4.32
UEDAMAlignknowncomplex	148	148	3.92	146	5.12
UEDAMAlignMCL	862	862	3.16	861	3.23
AlignMCL	933	915	3.22	927	3.79
Match-and-Split	27	27	4.63	27	6.85
Mawish	41	41	2.34	40	3.55
NetworkBlast	191	179	9.12	191	10.86
Produles	95	46	4.09	46	4.39

Methods	Human-fly
	Conserved pairs	Human		Fly
	Conserved pairs	Distinct complexes (size ≥2)	Avg size	Distinct complexes (size ≥2)	Avg size
UEDAMAlignCFinder (k = 4)	238	238	9.38	235	8.31
UEDAMAlignCMC	404	404	9.39	404	8.69
UEDAMAlignCoach	1,538	1,538	5.96	1,519	5.51
UEDAMAlignknowncomplex	515	515	4.11	510	4.48
UEDAMAlignMCL	1,453	1,453	3.77	1,450	3.2
AlignMCL	1,117	1,094	3.25	1,068	3.31
Match-and-Split	53	53	5.26	53	3.83
Mawish	65	61	2.59	55	2.22
NetworkBlast	164	164	9.01	158	7.6
Produles	187	99	3.77	91	3.41

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ISSN: 1748-7188

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