Table 3.

Summary of overrepresentation analysis of functional classes for different protein sets based on network properties.

Protein set	Overrepresented function	P value	Adjusted P value
Hubs	PE/PPE	2.10576e − 05	1.89518e − 04
Degree ≥ 100	Lipid metabolism	4.37537e − 12	1.96891e − 11
	Intermediary metabolism and respiration	1.06668e − 25	9.60013e − 25
	Lipid metabolism	2.33426e − 08	7.00278e − 08
Degree 50–99	Information pathways	0.0209259	0.0470832
	Regulatory proteins	1.91556e − 52	8.62003e − 52
	PE/PPE	8.196e − 115	7.3764e − 114
	Lipid metabolism	0.00358115	0.0080576
	Intermediary metabolism and respiration	1.33874e − 58	1.20487e − 57
Degree 10–49	Information pathways	2.6561e − 10	7.96829e − 10
	Virulence, detoxification, adaptation	4.90211e − 11	2.20595e − 10
	Unknown	4.98171e − 180	4.48354e − 179
Degree <10	Cell wall and cell processes	4.47945e − 04	1.78646e − 03
	Insertion seqs and phages	5.95487e − 04	1.78646e − 03
	Lipid metabolism	2.03723e − 04	3.66702e − 04
	Intermediary metabolism and respiration	5.99428e − 08	1.79828e − 07
Betweenness >15 000	Information pathways	1.54837e − 06	3.48383e − 06
	Regulatory proteins	3.51658e − 08	1.58246e − 07
	PE/PPE	4.48875e − 11	4.03987e − 10
Closeness >0.5	Unknown	2.58864e − 14	2.32978e − 13
Eigenvector >0.08	Lipid metabolism	1.5511e − 12	6.97994e − 12
	Intermediary metabolism and respiration	2.85447e − 31	2.56902e − 30
	Lipid metabolism	2.68651e − 05	4.83571e − 5
	Intermediary metabolism and respiration	2.12524e − 11	9.56358e − 11
Drug target	Information pathways	4.13904e − 07	9.31285e − 07
	Regulatory proteins	6.36758e − 08	1.91027e − 07
	PE/PPE	1.53973e − 12	1.38576e − 11