Generation and Analysis of Large-Scale Data-Driven Mycobacterium tuberculosis Functional Networks for Drug Target Identification

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