Table 2.

Functional annotations enriched with genes interrupted by gentamicin (partial data).

GO ID	GO term	Adjusted p-value∗	Associated genes found
KEGG:04151	PI3K-Akt signaling pathway	3.3E-20	AKT1, ATF2, ATF4, BDNF, CDK2, CHUK, COL1A1, COL1A2, CREB1, CREB3, CREB3L1, CSF1, EGFR, ERBB2, ERBB4, FGF2, FGFR1, FGFR2, FLT1, FLT4, FN1, GRB2, GSK3B, HRAS, HSP90AA1, HSP90AB1, HSP90B1, IFNA1, IKBKB, IKBKG, IL2, IL2RA, IL2RB, IL2RG, IL3, IL3RA, IL7R, ITGA2B, ITGA3, ITGA4, ITGA5, ITGA8, ITGA9, ITGAV, ITGB1, ITGB3, ITGB5, JAK1, JAK2, JAK3, KDR, KRAS, LAMA3, MAP2K1, MAP2K2, NGFR, NOS3, NRAS, NTF3, NTF4, NTRK1, NTRK2, PDGFA, PDGFB, PDGFRA, PDGFRB, PDPK1, PGF, PIK3CA, PIK3CB, PIK3CD, PIK3R1, PIK3R5, PKN1, RAF1, RELA, RHEB, SOS1, SPP1, SYK, THBS1, TLR2, TNXB, TP53, VEGFA, VEGFB, VTN, VWF, YWHAB, YWHAE, YWHAG, YWHAQ, YWHAZ
KEGG:04014	Ras signaling pathway	4.5E-17	AKT1, BDNF, CALM1, CALML3, CDC42, CHUK, CSF1, EGFR, ETS1, FGF2, FGFR1, FGFR2, FLT1, FLT4, GAB2, GRB2, HRAS, IKBKB, IKBKG, JMJD7-PLA2G4B, KDR, KRAS, KSR1, MAP2K1, MAP2K2, NGFR, NRAS, NTF3, NTF4, NTRK1, NTRK2, PAK1, PAK2, PDGFA, PDGFB, PDGFRA, PDGFRB, PGF, PIK3CA, PIK3CB, PIK3CD, PIK3R1, PLA2G1B, PLA2G2A, PLA2G4A, PLA2G4C, PLA2G4D, PLA2G4E, PLA2G4F, PLD1, PLD2, PRKACA, PRKACB, PTPN11, RAB5A, RAF1, RALBP1, REL, RELA, RHOA, SHC1, SHC2, SHC3, SOS1, TBK1, TIAM1, VEGFA, VEGFB
KEGG:04510	Focal adhesion	6.4E-17	ACTB, AKT1, BIRC2, CAV1, CDC42, COL1A1, COL1A2, CTNNB1, EGFR, ERBB2, FLNA, FLNB, FLT1, FLT4, FN1, FYN, GRB2, GSK3B, HRAS, ILK, ITGA2B, ITGA3, ITGA4, ITGA5, ITGA8, ITGA9, ITGAV, ITGB1, ITGB3, ITGB5, JUN, KDR, LAMA3, MAP2K1, PAK1, PAK2, PDGFA, PDGFB, PDGFRA, PDGFRB, PDPK1, PGF, PIK3CA, PIK3CB, PIK3CD, PIK3R1, PXN, RAF1, RHOA, SHC1, SHC2, SHC3, SOS1, SPP1, SRC, THBS1, TNXB, VAV2, VEGFA, VEGFB, VTN, VWF
KEGG:04010	MAPK signaling pathway	3.1E-16	AKT1, ATF2, ATF4, BDNF, CACNG4, CASP3, CDC42, CHUK, CSF1, EGFR, ERBB2, ERBB4, FAS, FGF2, FGFR1, FGFR2, FLNA, FLNB, FLT1, FLT4, FOS, GRB2, HRAS, HSPA1A, HSPA8, HSPB1, IKBKB, IKBKG, IRAK1, JMJD7-PLA2G4B, JUN, KDR, KRAS, MAP2K1, MAP2K2, MAP3K12, MAP3K7, NFATC1, NFATC3, NGFR, NRAS, NTF3, NTF4, NTRK1, NTRK2, PAK1, PAK2, PDGFA, PDGFB, PDGFRA, PDGFRB, PGF, PLA2G4A, PLA2G4C, PLA2G4D, PLA2G4E, PLA2G4F, PRKACA, PRKACB, RAF1, RAPGEF2, RELA, RELB, RPS6KA3, SOS1, TAB1, TAB2, TGFBR1, TGFBR2, TNF, TNFRSF1A, TP53, TRADD, TRAF2, TRAF6, VEGFA, VEGFB
KEGG:04722	Neurotrophin signaling pathway	9.9E-12	AKT1, ATF4, BDNF, CALM1, CALML3, CDC42, GRB2, GSK3B, HRAS, IKBKB, IRAK1, JUN, KRAS, MAP2K1, MAP2K2, NFKBIA, NGFR, NRAS, NTF3, NTF4, NTRK1, NTRK2, PDPK1, PIK3CA, PIK3CB, PIK3CD, PIK3R1, PTPN11, RAF1, RELA, RHOA, RPS6KA3, SHC1, SHC2, SHC3, SORT1, SOS1, TP53, TRAF6, YWHAE
KEGG:04810	Regulation of actin cytoskeleton	1.4E-11	ACTB, ARHGEF1, ARHGEF12, ARPC1A, ARPC1B, ARPC3, ARPC5, CDC42, EGFR, EZR, F2, FGF2, FGFR1, FGFR2, FN1, GSN, HRAS, IQGAP1, ITGA2B, ITGA3, ITGA4, ITGA5, ITGA8, ITGA9, ITGAV, ITGB1, ITGB3, ITGB5, KRAS, MAP2K1, MAP2K2, MSN, MYH10, MYH9, NCKAP1, NRAS, PAK1, PAK2, PDGFA, PDGFB, PDGFRA, PDGFRB, PIK3CA, PIK3CB, PIK3CD, PIK3R1, PXN, RAF1, RDX, RHOA, SLC9A1, SOS1, SRC, TIAM1, TMSB4X, VAV2
KEGG:04210	Apoptosis	1.2E-09	ACTB, AKT1, ATF4, BIRC2, CASP3, CASP8, CHUK, CSF2RB, CYCS, FADD, FAS, FOS, HRAS, IKBKB, IKBKG, IL3, IL3RA, JUN, KRAS, MAP2K1, MAP2K2, NFKBIA, NRAS, NTRK1, PARP1, PARP2, PDPK1, PIK3CA, PIK3CB, PIK3CD, PIK3R1, PRF1, RAF1, RELA, RIPK1, TNF, TNFRSF1A, TP53, TRADD, TRAF2
KEGG:00190	Oxidative phosphorylation	2.3E-06	ATP5F1B, ATP5PB, COX2, COX4I1, CYC1, CYTB, NDUFA10, NDUFA12, NDUFA2, NDUFA4, NDUFA6, NDUFA9, NDUFAB1, NDUFB11, NDUFB6, NDUFB9, NDUFS1, NDUFS4, NDUFS6, NDUFS8, NDUFV1, NDUFV2, SDHA, SDHB, SDHC, SDHD, UQCR10, UQCR11, UQCRB, UQCRC1, UQCRC2, UQCRFS1, UQCRH, UQCRQ
KEGG:04512	ECM-receptor interaction	8.2E-05	CD44, COL1A1, COL1A2, DAG1, FN1, HMMR, HSPG2, ITGA2B, ITGA3, ITGA4, ITGA5, ITGA8, ITGA9, ITGAV, ITGB1, ITGB3, ITGB5, LAMA3, SPP1, THBS1, TNXB, VTN, VWF

^∗The raw p-values were adjusted using the Bonferroni step down method.