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