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Table 5 The top pathways after mapping of 5 % highest ranked genes from the reconstructed gene association networks to the Reactome pathways

From: Transcriptomic analyses of the radiation response in head and neck squamous cell carcinoma subclones with different radiation sensitivity: time-course gene expression profiles and gene association networks

  Pathway Genes
CAL-33 parental Generic transcription pathway CCNC, NR4A3, ZNF248, ZNF302, ZNF350, ZNF417, ZNF431, ZNF543, ZNF621, ZNF710, ZNF735
Cellular responses to stress BAG4, CDKN2D, DEDD2, GABARAPL2, HSPA1A, MAPK10, RBX1
Diseases of signal transduction CBL, CCNC, CTBP2, FOXO4, RBX1, TGFB1
EPH-ephrin mediated repulsion of cells CLTCL1, EFNA5, SRC
Neurotransmitter release cycle CHAT, SNAP25, STXBP1
O-linked glycosylation ADAMTSL5, CFP, ST3GAL3, THBS2
Signaling by EGFR CBL, FOXO4, NF1, PAG1, RBX1, SPRY1, SRC
Signaling by Wnt CTBP2, DAAM1, FRAT1, RAC2, RBBP5, RBX1, SOX3
Signaling by Rho GTPases ABR, CENPA, DAAM1, PKN3, RAC2, RANGAP1, SRC
Cytochrome P450 - arranged by substrate type CYP17A1, CYP3A4, CYP4A11
SP subclone Axon guidance APH1A, DPYSL3, HSP90AB1, ITGA9, LAMTOR2, NRG1, PLXNA4, PPP2CA, PSPN, RAC1, RDX, RGMB
Generic transcription pathway AKT2, LAMTOR2, MED26, TBL1XR1, ZNF302, ZNF394, ZNF431, ZNF561, ZNF680, ZNF691, ZNF750, ZNF774
Cell cycle CDKN2D, EP300, MASTL, MAU2, MCM4, NUPL2, PPP2CA, RAD21, RANGAP1, SKA2, SYCP1
Chromatin organization ATXN7, EP300, HIST3H2A, KDM4D, KDM5D, SUPT20H, TBL1XR1
Diseases of signal transduction AKT2, APH1A, BCR, CTBP2, EP300, NRG1, PPP2CA, TBL1XR1
Signaling by Wnt AKT2, CCDC88C, CTBP2, EP300, PLCB1, PPP2CA, RAC1, RNF146
Semaphorin interactions DPYSL3, HSP90AB1, PLXNA4, RAC1
Glycolysis ALDOC, GCK, PPP2CA
Regulation of beta-cell development AKT2, GCK, IAPP
RHO GTPases activate WASPs and WAVEs NCKIPSD, RAC1, WAS
RP subclone Signaling by Rho GTPases ABR, ACTB, ARHGAP35, ARHGEF7, BCR, HIST1H2BJ, HIST1H2BL, HIST2H2BE, INCENP, ITSN1, NDE1, OBSCN, RHOT1, SRGAP1, WAS
Cell Cycle ANAPC11, BLM, CDKN1A, CDKN2D, FZR1, HIST1H2BJ, HIST1H2BL, HIST2H2BE, INCENP, KIF23, MAU2, NDE1, NUP62, POM121, PSMC3IP, TK2, WHSC1
Senescence-associated secretory phenotype (SASP) ANAPC11, CDKN1A, CDKN2D, FZR1, HIST1H2BJ, HIST1H2BL, HIST2H2BE
GPCR ligand binding CCL19, GPR132, MC1R, MLN, OPN1SW, OPRL1, PTCH2, PTGDR, PTGER1, TAS2R14, TAS2R19, TAS2R45, TBXA2R, WNT10B
Transcriptional regulation by small RNAs HIST1H2BJ, HIST1H2BL, HIST2H2BE, NUP62, POM121
G alpha (12/13) signaling events ABR, ARHGEF7, ITSN1, OBSCN, TBXA2R
Post-translational protein modification ADAMTS19, ARSB, ARSG, BLM, CFP, CNIH1, CNIH2, GALNT10, NUP62, POM121, ST3GAL3
DNA repair ACTB, BLM, CHD1L, DTL, ERCC6, HIST1H2BJ, HIST1H2BL, HIST2H2BE, WHSC1
Signaling by Wnt HIST1H2BJ, HIST1H2BL, HIST2H2BE, NFATC1, PLCB1, SOX3, TCF7L2, TMED5, WNT10B
Assembly of the primary cilium BBS10, CC2D2A, NDE1, NPHP1, PDE6D, TCTEX1D2, TTC30B