Genome-wide associations of signaling pathways in glioblastoma multiforme

BMC Medical Genomics

Table 2 Pathways enriched with driver genes that are associated to over- and under-expressed pathways in GBMs

Over-expressed pathways
Enriched pathways	P	Driver genes
ERBB1_RECEPTOR_PROXIMAL_PATHWAY	0.001	PIK3CA KRAS EGFR GAB1
VEGFR1_PATHWAY	0.002	PGF PIK3CA NOS3 GAB1
PDGFRBPATHWAY	0.003	PTEN SHB GAB1 PTPRJ PIK3CA
TCPTP_PATHWAY	0.004	HGF PIK3CA EGFR GAB1
ERBB1_DOWNSTREAM_PATHWAY	0.005	PIK3CA EGFR GAB1 BRAF KSR1 KRAS
IL2_STAT5PATHWAY	0.019	IL2RA CDK6 PIK3CA
PI3KPLCTRKPATHWAY	0.020	PIK3CA GAB1 KRAS
ERBB1_INTERNALIZATION_PATHWAY	0.022	PIK3CA EGFR KRAS
TRKRPATHWAY	0.023	PIK3CA GAB1 NTRK2 KRAS
RET_PATHWAY	0.038	PIK3CA RET GAB1
FASPATHWAY	0.038	PIK3CA CASP3 FAS
VEGFR1_2_PATHWAY	0.039	PIK3CA SHB NOS3 GAB1
ER_NONGENOMIC_PATHWAY	0.042	PIK3CA NOS3 KRAS
TCRRASPATHWAY	0.045	BRAF KRAS
Under-expressed pathways
Enriched pathways	P	Driver genes
ERBB2ERBB3PATHWAY	0.005	PIK3R3 MAPK10 FRAP1 KRAS
TCPTP_PATHWAY	0.006	HGF PIK3R3 EGF KDR
ET_EGFRPATHWAY	0.008	FRAP1 EGF
ERBB1_DOWNSTREAM_PATHWAY	0.009	FRAP1 PIK3R3 EPS8 KSR1 EGF KRAS
IL2_1PATHWAY	0.017	IL2RA IL2 PRKCB1 KRAS
ERBB1_RECEPTOR_PROXIMAL_PATHWAY	0.019	PIK3R3 EGF KRAS
ERBB1_INTERNALIZATION_PATHWAY	0.027	PIK3R3 EGF KRAS
TCRRASPATHWAY	0.027	PRKCB1 KRAS
CD8TCRDOWNSTREAMPATHWAY	0.033	IL2RA IL2 PRKCB1 KRAS
CXCR3PATHWAY	0.038	PIK3R3 FRAP1 KRAS
IL2_PI3KPATHWAY	0.041	IL2RA IL2 FRAP1
TELOMERASEPATHWAY	0.043	IL2 EGF FRAP1 NBN

Significantly pooling driver genes that were associated to over-expressed pathways, we found 14 pathways applying Fisher’s exact test (P < 0.05). Analogously, we observed 12 pathways enriched with driver genes that were associated to under-expressed pathways. We annotated all pathways with their corresponding driver genes.

ISSN: 1755-8794