Table 4.
Upstream transcription networks and their target genes in the Tff1 knockout gastric low-grade dysplasia tissue samples.
| Upstream Regulator |
Predicted Activation State |
p-value of overlap |
Target molecules in dataset |
|---|---|---|---|
| STAT3 | Activated | 2.76E−13 | ARG1,BCL3,CD9,CEBPB,CXCL3,CXCL6,DDIT3,FN1,FST,GLIPR 1,HIF1A,HK2,ICAM1,IGFBP5,IL13RA2,IL1B,IL1RN,MUC1,NF ATC2,PDIA4,PTGS2,PTPN2,SLFN12L,TIMP1,TNFSF11,VEGFA |
| RELA | Activated | 1.91E−12 | APOE,CCL11,Ccl2,CD44,CEBPB,COL1A1,CXCL1,CXCL2,CXCL3, CXCL6,CXCR4,DDIT3,ICAM1,IL1B,IL1RN,PTGS2,REG3A,Reg 3g,Saa3,SDC4,SERPINE2,VEGFA |
| CTNNB1 | Activated | 2.14E−11 | BGN,CAPNS1,CCND2,CD44,CELSR1,CLDN2,COL1A1,COL4A1, COL4A2,CTGF,FN1,FOXC1,GAST,GPX2,HSD17B2,HTRA1,IFI TM1,IGFBP5,IL1B,IL1R1,INHBB,MFGE8,MMP23B,MMP3,PS AP,PTGS2,RUNX2,Saa3,SERPINA3,SERPINE2,SOX4,TIMP1,V EGFA |
| MYC | 3.21E−10 | APEX1,ARG1,CCND2,CD44,Clu,CNP,COL1A1,COL1A2,COL4A 1,COL4A2,COL5A2,DDIT3,FN1,GJA1,HIF1A,HK2,ME2,PDGF RB,PROM1,SAT1,SCEL,SERPINE1,SERPINE2,SHMT1,SPARC,T HBS1,TNFSF11,VEGFA | |
| HIF1A | Activated | 5.02E−08 | APOE,CTGF,CXCR4,CYP2S1,FHL1,FLT1,GJA1,HIF1A,HK2,IGF BP3,IL1B,INHBB,ITGAV,KIAA1199,MUC1,PROM1,PTGS2,SE RPINE1,VEGFA |
| ETS1 | Activated | 6.69E−04 | Ccl2,CTGF,FCGR2A,FLT1,FN1,MMP13,RUNX2,SERPINE1,ZE B2 |
| NFATC2 | Activated | 3.42E−03 | ABCA1,CXCL3,DAB2,INHBA,PTGS2,REL,SLFN12L |
Upstream Regulator, the upstream regulator for the target genes in dataset. Predicted Activation State, signaling pathway status is predicted based on the downstream target gene expression levels. P value of overlap, 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.