Comparison of module detection algorithms in protein networks and investigation of the biological meaning of predicted modules

Table 3 Modularity, Q, of PPI networks detected by different module detection algorithms

Tax id	\(D_{M_{pearson}}\phantom {\dot {i}\!}\)	\(D_{M_{spearman}}\phantom {\dot {i}\!}\)	\(D_{{sp}_{pearson}}\phantom {\dot {i}\!}\)	\(D_{sp_{spearman}}\phantom {\dot {i}\!}\)	Fast greedy	Label propogation	Multilevel	Spinglass	Walktrap
House mouse	0.4903	0.4168	0.4281	0.3999	0.5647	0.4578	0.6066	0.6239	0.5265
Norway rat	0.5061	0.2901	0.4985	0.4948	0.6608	0.5089	0.6682	0.6683	0.5951
Candida albicans SC531	0.4571	0.4629	0.4625	0.4629	0.4757	0.428	0.4757	0.4728	0.4689
Schizosaccharomyces pombe 972h	0.1669	0.1673	0.1005	0.128	0.2396	3e-04	0.2516	0.268	0.1545
Plasmodium falciparum 3D7	0.4775	0.4576	0.4713	0.466	0.5171	0.0066	0.5222	0.5396	0.3505
Arabidopsis Thaliana	0.6635	0.6004	0.5824	0.5781	0.6893	0.6977	0.7296	0.742	0.6822
Saccharomyces cerevisiae S288c	0.2108	0.2055	0.0399	0.0283	0.2557	1e-04	0.2532	0.2741	0.2221
Caenorhabditis elegans	0.5141	0.5087	0.5023	0.4989	0.6042	0.1872	0.6106	0.6231	0.5268
Drosophila melanogaster	0.4509	0.4491	0.4124	0.4238	0.471	0.2608	0.5232	0.5307	0.3865
Homo sapiens	0.2045	0.0898	0.0708	0.0655	0.2877	1e-04	0.3498	0.3612	0.253
Average modularity	0.4141	0.3648	0.3568	0.3546	0.4765	0.2547	0.4990	0.5103	0.4166

The bold values show two highest modularities of the modules predicted by module detection algorithms

ISSN: 1471-2105