Integration Strategy Is a Key Step in Network-Based Analysis and Dramatically Affects Network Topological Properties and Inferring Outcomes

Table 11

Gene symbol and degree of the proteins that have the largest degree in every molecular complex of each network.

Strategies	Gene symbol	Degree
Union	RPL5, UBC	64
Intersection	IRAK1, IRAK2, and IRAK3	4
2-Vote	UCHL5	25
3-Vote	IKBKG	10
SVM	RPS8, RPS2, RPL5, RPL11, RPL18, RPS16, RPS6, RPL19, RPS13, RPL21, RPL6, RPL10A, UBC, RPS4X, RPL4, and RPS3	60
Naive Bayes	MED26, MED29	27
Random Tree	RPL5, UBC, and RPL4	39
J48	RPS2, RPL5, RPL11, RPS6, RPL19, RPL21, RPL6, RPL10A, UBC, RPS4X, RPL14, and RPL4	47
Logistic Regression	RPL5	65
Random Forest	RPL11, RPS6, RPL14, and RPL4	58
Bayesian Networks	RPL18, RPS16, RPS6, RPS4X, RPS8, RPS2, RPL5, RPL21, UBC, and RPL4	64