Protein complex detection based on partially shared multi-view clustering

BMC Bioinformatics

Table 1 Comparison between PSMVC and various protein complex detection algorithms in terms of three evaluation metrics with respect to two reference sets

Methods	# complexes	# proteins	Reference sets
			CYC2008			SGD
			Evaluation metrics
			FRAC	Recall	Acc	FRAC	Recall	Acc
PSMVC	1534	5508	0.712	0.706	0.814	0.607	0.598	0.699
EC-BNMF [28]	400	1936	0.577	0.558	0.763	0.530	0.497	0.681
InteHC [3]	366	2763	0.571	0.527	0.765	0.530	0.466	0.697
ClusterONE [27]	362	1394	0.337	0.353	0.559	0.333	0.333	0.512
CMC [25]	566	1391	0.442	0.468	0.523	0.388	0.420	0.475
Linkcomm [49]	1531	2640	0.399	0.492	0.549	0.399	0.455	0.516
MCODE [47]	83	952	0.166	0.139	0.435	0.109	0.094	0.388
MINE [48]	231	1247	0.337	0.312	0.526	0.295	0.275	0.497
MF-PINCoC [50]	1099	2838	0.399	0.368	0.563	0.355	0.330	0.520
PINCoC [51]	1101	4457	0.423	0.394	0.573	0.404	0.366	0.535
RANCoC [52]	1069	2797	0.436	0.406	0.596	0.410	0.379	0.542
SPICi [26]	420	2041	0.350	0.329	0.563	0.339	0.313	0.510
BT [53]	409	1286	0.509	0.463	0.749	0.508	0.461	0.678
C2S [31]	1035	4499	0.571	0.527	0.781	0.519	0.463	0.692
CACHET [29]	449	963	0.472	0.665	0.697	0.448	0.626	0.632
Hart [54]	390	1307	0.509	0.467	0.746	0.481	0.421	0.665
Pu [55]	400	1504	0.479	0.418	0.729	0.497	0.429	0.669

Here “# complexes” denotes the number of complexes predicted by each algorithm, and “# proteins” denotes the number of proteins covered by the complexes predicted by each algorithm

ISSN: 1471-2105