Table 2. Predicted transcription factors and targets identified among 1396 genes that passed Welch's t-test, FDR correction (q⩽0.05) and 1.5-fold change cutoff.
| TF | z-score | P-value | Target molecules in data set |
|---|---|---|---|
| Activated transcription factors and targets | |||
| GFI1 | 3.1 | 4.1E-04 | CASP1, CDKN1A, CEBPA, GUSB, ICAM1, IL1A, IL1B, IL8, IRF1, MMP7, NFKB1, NFKB2, RELA, RELB, TRAF3 |
| MYC | 3 | 1.6E-17 | ACAT1, ACTB, ACTN1, AFP, AHCY, ALB, BCAT1, BCL6, BIN1, BIRC2, BIRC5, CAPN2, CASP1 CASP10, CAV1, CCND1, CCND3, CD44, CD48, CDC20, CDH2, CDK1, CDK11A/CDK11B, CDKN1A, CEBPA, COL14A1, COL1A1, CSPG4, CYFIP2, DDX11/DDX12, DDX3X, DDX5, DUSP6, EDN1, EGR2, EIF2S2, F2, F3, FBN1 |
| FOXM1 | 2.8 | 4.8E-05 | BIRC5, CCND1, CDC20, CDK1, CDKN1A, CENPA, CENPF, FOXM1, KDR, KIF20A, MMP2, PLK4, TGFBR2 |
| GLI2 | 2.7 | 3.2E-02 | CCL5, CCND1, CDK1, CDKN1A, IL1B, ITGB1, KRT1, KRT17, PTCH1, SFRP1 |
| MAX | 2.4 | 1.4E-03 | BCL6, CDKN1A, EDN1, FTH1, ID1, KLF6, LAMP2, MTHFD1, PDGFRB, SERINC3, TSC2, UBE2C |
| HNF1A | 2.1 | 3.6E-02 | ABCC2, AFP, AKR1C4, ALB, ANPEP, APOB, AQP9, BCL6, C2, CCND1, DPP4, DUSP6, FAM107B, FBXO8, FGA, FGB, G0S2, GNB2L1, HNF4A, IGFBP1, KIF20A, KIR3DL1, LCAT, MTHFD1, NAPA, PDK1, PFKP, PIH1D1, PRLR, PZP, SERPINA7, SLC26A1, SLCO1A2, SSTR4, TRA@, UQCRC2, UROD |
| Inhibited transcription factors and targets | |||
| CEBPB | −2.2 | 1.3E-11 | ACTG2, ALB, C3, CCL5, CCND1, CD14, CDKN1A, CEBPA, CEBPB, COL1A1, CP, CSF1R, CTSC, CXCL5, CYP19A1, DDX5, DEGS1, FTL, HLA-C, HP, HSPD1, ICAM1, ID1, IGFBP1, IL1B, IL1RN, IL8, INMT, IRF9, LAMC1, LCP2, LYN, MGP, MIA, PCTP, PDGFRA, PEA15, PLAUR, PPARD, PRKCD, PR |
| JUNB | −2.3 | 2.8E-03 | ACLY, CAV1, CCND1, CD68, CDC20, COL1A1, CYP19A1, FTH1, MMP2, MVD, NCF2, PTBP2, RELB, SCD |
| CIITA | −2.4 | 1.4E-07 | B2M, CCND1, CD74, COL1A1, HLA-B, HLA-DOB, HLA-DPA1, HLA-DQA1, HLA-DQB1, HLA-DRA, HLA-DRB1 |
| POU2AF1 | −2.6 | 3.4E-03 | BCL6, CCND3, CD79A, CD79B, IGHA1, IGHG1, LCK, TRAF3 |
| STAT1 | −2.8 | 8.2E-12 | A2M, B2M, BIRC5, BTG1, C3, CASP1, CASP2, CASP4, CCL5, CCND1, CCND3, CCR7, CD14, CDKN1A, DPP4, FCER1G, GATA3, GBP1, GZMB, HLADRB1, ICAM1, IFIT3, IL1B, IL8, IRF1, IR5, IRF7, IRF9, LY96, NFE2, PDGFRB, PF4, PRL, PSMB10, PTGS2, SMAD7, SOCS3, STAT2, TLR4, TN |
| FOXO3 | −2.8 | 1.8E-04 | BIRC5, CCND1, CDKN1A, CTGF, CYR61, FOXM1, FOXO1, GPX1, IER3, IGFBP1, IL8, NAMPT, NOS3, SATB1, SOD2, TNFRSF1B, TXNIP, UBC, UBE2C |
| SPI1 | −2.9 | 1.5E-10 | ACTB, CCR7, CD14, CD68, CD79A, CD79B, CEBPA, CSF1R, CYBB, DUSP6, FCER1G, FLI1, FTH1, GNB2L1, GPX1, IGL@, IL1B, IL1RN, IRF9, ITGA5, ITGAM, ITGB2, MCL1, MMP2, NCF2, P2RY1, PIK3CG, PTGS2, PTPRC, RELA, TK1, TLR2, TLR4 |
| IFI16 | −3 | 1.8E-04 | CCL5, CCND1, CDKN1A, EDN1, GPX1, ICAM1, IFI16, IL1B, IL1RN, IL2RB, IL8, RPA3, STAT2 |
| HMGB1 | −3.1 | 1.6E-06 | CD83, CDKN1A, CXCL5, HLADRB1, ICAM1, IL1A, IL1B, IL8, MIA, PTGS2, RELB, SIRT1, TLR2, TLR4 |
| IRF1 | −3.2 | 1.0E-06 | B2M, CASP1, CASP2, CCL5, CCND1, CDKN1A, CYBB, EIF4A3, HLA-G, IFIT3, IL1B, IL8, IRF1, IRF5, IRF7, IRF9, LTB, NFE2, PF4, PSMB10, PTGS2, SOCS7, STAT2, TRIM22 |
| CREB1 | −3.4 | 1.5E-08 | ARPC3, ATP6V0B, BTG2, CCND1, CD3D, CD4, CD68, CD79A, CDH2, CEBPB, CYP19A1, CYP51A1, CYR61, DIO2, EDN1, EGR2, FN1, FOSB, GALNT1, HERPUD1, HLA-DRA, HLA-G, HMGCS1, HSPA4, IL1B, INHA, IRF7, MCL1, PDE3B, PDGFRA, PER1, PRL, PTGS2, SCD, SLC16A1, SLC2A4, SOD2, TF, TFAP2A, UPP1 |
| NFKB1 | −3.4 | 1.9E-08 | A2M, ADORA1, AKR1B1, B2M, BTG2, CCL5, CCND1, CDKN1A, COL2A1, CYBB, FANCD2, GATA3, GNB2L1, ICAM1, IER3, IFNGR2, IGHG1, IL1B, IL1RN, IL8, IRF1, LTB, MICA, NFKB1, NFKB2, PLK3, POU2F2, PRKACA, PTGS2, RELA, RELB, SOD2, TK1, TLR2, TNFAIP3 |
| RELA | −3.7 | 3.1E-17 | A2M, ABCG2, ACTA2, AFP, B2M, BIRC2, BTG2, CAV1, CCL5, CCND1, CCR7, CD44, CDKN1A, COL2A1, CXCL1, CYBB, CYP19A1, DIO2, EDN1, EWSR1, F3, GDF15, HLA-B, ICAM1, IER2, IER3, IFNGR2, IGHG1, IL1A, IL1B, IL1RN, IL8, INPP5D, IRF1, IRF7, L |
| IRF7 | −3.9 | 3.0E-03 | CASP4, CCL5, GBP1, IFI16, IFIT3, IRF1, IRF9, ISG20, ITGAM, MCL1, NAMPT, PSMB10, STAT2, TLR4, TMPO, TRIM21, TRIM22 |
Abbreviation: TF, transcription factor/regulator.
Regulation z-score; P-value of overlap.