MCL-CAw: a refinement of MCL for detecting yeast complexes from weighted PPI networks by incorporating core-attachment structure

Table 16 Relative ranking of affinity scoring schemes for complex detection

PPI network		Wodak		MIPS		Aloy
	Method	F1	Norm	F1	Norm	F1	Norm	Total	Norm
MCL	Cons_3.19	0.573	1.000	0.407	1.000	0.567	0.970	2.970	1.000
	FSW(G+K)	0.541	0.944	0.393	0.965	0.585	1.000	2.909	0.980
	ICD(G+K)	0.498	0.871	0.370	0.908	0.543	0.928	2.706	0.911
	Boot_0.094	0.426	0.744	0.299	0.733	0.400	0.684	2.161	0.728
MCLO	Cons_3.19	0.606	1.000	0.471	1.000	0.575	0.939	2.939	1.000
	ICD(G+K)	0.533	0.879	0.412	0.875	0.572	0.934	2.688	0.914
	FSW(G+K)	0.513	0.847	0.376	0.798	0.612	1.000	2.645	0.900
	Boot_0.094	0.424	0.700	0.267	0.567	0.392	0.641	1.908	0.649
MCL-CAw	Cons_3.19	0.614	1.000	0.487	1.000	0.576	0.921	2.921	1.000
	FSW(G+K)	0.576	0.938	0.423	0.868	0.625	1.000	2.806	0.961
	ICD(G+K)	0.567	0.923	0.450	0.923	0.578	0.925	2.771	0.949
	Boot_0.094	0.447	0.728	0.282	0.579	0.416	0.666	1.973	0.675
CMC	Cons_3.19	0.604	1.000	0.479	1.000	0.588	1.000	3.000	1.000
	Boot_0.094	0.577	0.955	0.366	0.764	0.515	0.877	2.597	0.866
	ICD(G+K)	0.531	0.880	0.403	0.843	0.480	0.816	2.538	0.846
	FSW(G+K)	0.484	0.801	0.338	0.705	0.465	0.791	2.297	0.766
HACO	FSW(G+K)	0.581	1.000	0.396	1.000	0.609	1.000	3.000	1.000
	Boot_0.094	0.572	0.984	0.380	0.961	0.585	0.961	2.906	0.969
	ICD(G+K)	0.565	0.972	0.378	0.956	0.593	0.973	2.902	0.967
	Cons_3.19	0.495	0.852	0.379	0.957	0.502	0.824	2.634	0.878

ISSN: 1471-2105