Table 5.
Upstream transcription networks and their target genes in human gastric cancer tissue samples.
| Upstream Regulator |
Predicted Activation State |
p-value of overlap |
Target molecules in dataset |
|---|---|---|---|
| TP53 | Inhibited | 2.60E−16 | ACAT1,ACOT11,ALDH4A1,ANXA3,ARPC1B,AURKA,BCL2 L1,BID,BNIP3,BRCA1,BUB1,BUB1B,C2,CDC7,CDK4,CDK N3,CENPF,CHEK1,CKAP2,CKB,CTSB,CXCL1,CYB5A,DNM T1,DSN1,EPHX1,EXO1,F2R,F5,FAT1,FOS,FOXP3,GLUL,G NAI1,GPD1L,GPX1,GPX3,GSN,HBEGF,HMGB1,IDH2,IFI3 0,IFI35,IGF1R,IGFBP2,IGFBP3,IL2RA,IPO9,KAT2B,KIF23, KIFC1,KPNA2,LIF,LSS,MCM3,MCM6,MCM7,ME1,MMP 9,NCAPG,NCAPH,NEK2,NFKB2,NOTCH1,PARK2,PCCA,P ML,PRC1,PTPN6,PYCARD,RBL1,RFC3,RPRM,SERPINH1, SGK1,SH3BGRL2,SLC2A12,SLC6A6,SNX5,SPC25,STAT1,S TMN1,TAP1,TDO2,TMSB10/TMSB4X,TNFRSF10B,TNFR SF9,TOP2A,TPD52L1,TPP1,TPX2,TYMS,UBE2C,UBL3,XP O1 |
| RELA | Activated | 7.52E−08 | B2M,BCL2L1,CCL11,CCL20,CXCL1,CXCL11,CXCL9,CYP2B 6,FOS,ICAM1,IFNGR2,KIT,LYN,MMP1,MMP9,NFKB2,N MI,PSMB9,PTPN6,SAA2,SLC1A2,SLC2A4,TAP1,TAPBP |
| STAT3 | Activated | 4.52E−07 | BCL2L1,CCL20,CD80,CHI3L1,CLN6,CTLA4,CXCL9,ECT2,F OS,FOXP3,FST,HLA- B,ICAM 1,ICOS, IFI30,IFI35,IKBKE,I L2RA, KAT2B,MMP9,P SMB8,PSMB9,SGK1,STAT1,TAP1,TIMP1 |
| MYC | Activated | 2.28E−05 | ANGPT2,BAG1,BUB1,BUB1B,CAD,CCNB2,CCT3,CDC25B, CDK4,CHEK1,DLEU2,EFTUD2,FOXM1,HIST1H4A (includes others),MCM6,MCM7,MMP7,MMP9,PARP1,PDCD4,PL AU,PML,SERPINH1,SGK1,SNRPD1,TFRC,TMSB10/TMSB 4X,TNFRSF10B,TYMS,UBE2C,XPO1 |
| FOXM1 | Activated | 2.753 | ANLN,ASPM,ATP6V0D2,BID,CCNB2,CENPF,CKMT2, DEPDC1,DLGAP5,FOS,FOXM1,GK,KIF18A,ME1,MM P1, MMP9,NCAPG,NEK2,NUSAP1, PLSCR1, PRC1, PS MB8,SCARB1, SGK1, SLC2A4,SPC25,STAT2,TDO2 |
| NFATC2 | Activated | 3.92E−04 | ABCA1,CDK4,CTLA4,E2F5,FOXP3,ICOS,IFIT2,IL2RA,NMI, PML,STAT1,STAT2 |
| HIF1A | Activated | 7.64E−02 | AURKA,BCL2L1,BNIP3,CYB5A,ESRRG,FOS,HIST1H4A (includes others), IGFBP3,LIFR,MMP9,NOTCH1,SLC16A4,TFRC |
| CTNNB1 | 1.27E−04 | ALDH3A2,AQP4,BCL2L1,BGN,COL4A5,CTSZ,CXCL9,CYB 5A,CYP2E1,EPHB2,F2R,FCER1G,GLUL,GPR137B,ID4,IDO 1,IFITM1,KIF23,KIFC1,LAP3,LEF1,LIPA,ME1,MMP1,MM P14,MMP7,MMP9,NCAM1,PCCA,PLAU,SGK1,TIMP1,W IF1 | |
| ETS1 | Activated | 2.21E−02 | CCR8,FOXP3,IL2RA,MMP1,MMP9,PARP1,PLAU,PML, SP100,TBXAS1 |
Upstream Regulator, the upstream regulator for the target genes in dataset. Predicted Activation State, signaling pathways’ status predicted based on the downstream target gene expression levels. P value of overlap, this is the p value computed using Fisher’s Exact Test. This p-value measures the significance of overlap between our gene set and genes that are regulated by a transcriptional regulator stored in the Ingenuity Knowledge Base. Target molecules in dataset, genes that are regulated by a transcription upstream regulator based on the Ingenuity Knowledge Base.