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

Table 7

The top 10 genes of all of the genes, except for the seed genes, from 11 integration networks in the detection of disease genes using RWR.

Strategy	The symbols of the top 10 genes
Union	UBC, TAF1, MYC, HNF4A, SMARCA4, ELAVL1, CDK2, FASLG, XRCC6, and SDHA
Intersection	YWHAB, RAD50, CTNNB1, GRB2, SHC1, ABL1, YWHAZ, YWHAE, ERBB2, and RB1
2-Vote	MLH1, PTPN6, XRCC6, EXO1, ARHGDIA, VAV3, HRAS, FASLG, APP, and TNIK
3-Vote	PTPN6, MAX, ZHX1, CCDC90B, MLH1, EXO1, IMMT, VIM, ASF1B, and ASF1A
SVM	UBC, TAF1, MYC, HNF4A, SMARCA4, ELAVL1, CDK2, FASLG, XRCC6, and SDHA
Naive Bayes	UBC, TAF1, MYC, HNF4A, SMARCA4, ELAVL1, CDK2, XRCC6, FASLG, and SDHA
Random Tree	UBC, MYC, XRCC6, SMARCA4, ARHGDIA, TAF1, ABL1, ELAVL1, FASLG, and CDK2
J48	UBC, TAF1, MYC, HNF4A, SMARCA4, XRCC6, ELAVL1, FASLG, CDK2, and DTNBP1
Logistic Regression	UBC, TAF1, MYC, HNF4A, SMARCA4, XRCC6, ELAVL1, CDK2, FASLG, ARHGDIA
Random Forest	UBC, TAF1, MYC, HNF4A, SMARCA4, ELAVL1, CDK2, FASLG, XRCC6, and SDHA
Bayesian Networks	UBC, TAF1, MYC, HNF4A, SMARCA4, ELAVL1, CDK2, FASLG, XRCC6, and SDHA

Note: the description of these genes was listed in Supplementary Table S1 of the Supplementary Material available online at http://dx.doi.org/10.1155/2014/296349.