Finding low-conductance sets with dense interactions (FLCD) for better protein complex prediction

BMC Systems Biology

Table 2 Comparison of protein complex prediction by SGD reference dataset

Network	Method	# complex	#. matched	coverage	Recall	Precision	F-measure	Sn	PPV	Acc	MMR
SceDIP	FLCD	2134	152	3921	0.6786	0.2020	0.3113	0.5964	0.5003	0.5462	0.3685
	CONE	380	86	1503	0.3839	0.2579	0.3085	0.4082	0.6203	0.5032	0.1950
	LinkC	1839	137	3735	0.6116	0.1289	0.2130	0.6290	0.4820	0.5506	0.3276
	SR-MCL	3216	44	4678	0.2228	0.0221	0.0412	0.5120	0.2893	0.3489	0.0708
SceBG	FLCD	4027	183	5836	0.7821	0.2000	0.3181	0.7363	0.5621	0.6433	0.4920
	CONE	522	122	2735	0.5214	0.2433	0.3318	0.6488	0.6035	0.6257	0.2542
	LinkC	5382	164	6076	0.7008	0.1217	0.2072	0.8880	0.4373	0.6231	0.4100
	SR-MCL	1862	108	5889	0.4615	0.1245	0.1961	0.8999	0.3034	0.5225	0.2151
SceIntAct	FLCD	3394	172	4678	0.7446	0.1933	0.3069	0.6699	0.5391	0.6009	0.4661
	CONE	496	117	1994	0.5065	0.2419	0.3275	0.5742	0.5944	0.5842	0.2742
	LinkC	1297	93	5290	0.4026	0.0941	0.1525	0.9223	0.2393	0.4698	0.2285
	SR-MCL	1079	68	5342	0.2294	0.0437	0.1517	0.7784	0.2402	0.4341	0.1213
SceMINT	FLCD	2483	157	4210	0.6826	0.2280	0.3418	0.6524	0.5284	0.5871	0.4163
	CONE	513	110	2335	0.4783	0.2027	0.2848	0.5370	0.5954	0.5654	0.2442
	LinkC	2201	144	4068	0.6261	0.1595	0.2542	0.6757	0.5540	0.6119	0.3743
	SR-MCL	3698	33	4976	0.1435	0.0169	0.0302	0.5013	0.2597	0.3608	0.0609

ISSN: 1752-0509