Table 1.
Over-Represented, Differentially Regulated Genes in Lung Tumors From Nrf2 Wild-Type Versus Knockout Mice
| Description | Genes upregulated in KO mice | Genes downregulated in KO mice | GO accession | p-Value (over-represented) |
|---|---|---|---|---|
| Chemokine activity | Cxcl1, Cxcl12, Ccl17, Ccl9, Cxcl3, Ccl11 | GO:0008009 | 1.07E-06 | |
| Chemokine receptor binding | Cxcl3, Ccl11, Cxcl12, Ccl9, Ccl17, Cxcl1 | GO:0042379 | 1.07E-06 | |
| Cytokine activity | Csf1, Ccl11, Cxcl3, Cxcl1, Ccl9, Ccl17, Cxcl12 | GO:0005125 | 3.35E-06 | |
| Immune response | Ltb, Cxcl3, Ccl9, H2-Q6, H2-K1, H2-M5, Ccl11, Cxcl1, H2-M2, Ccl17, Cxcl12, Ms4a1 | Dsp | GO:0006955 | 9.43E-06 |
| Immune system process | Ltb, Cxcl3, Ccl9, H2-K1, H2-Q6, H2-M5, Ccl11, Cxcl1, H2-M2, Ccl17, Cxcl12, Ms4a1 | Dsp | GO:0002376 | 3.47E-05 |
| Cytokine receptor binding | Cxcl3, Ccl11, Ltb, Cxcl12, Ccl17, Ccl9, Cxcl1 | GO:0005126 | 0.0008711 | |
| Antigen processing and presentation | H2-Q6, H2-K1, H2-M2, H2-M5 | GO:0019882 | 0.0087215 | |
| Extracellular matrix | S100g, Des, S100a9, Mfap5, Mmp12, Mmp25, Fcer2a, Fgl2 | Gpc3, Thsd4, Ppp3r2, Pls1, Gpc6 | GO:0031012 | 0.00026772 |
| Extracellular region part | Tmcc2, S100a9, S100g, Des, Fcer2a, Fgl2, Gm26788, Mfap5 | Myof, Gpc3, Afp, Pls1, Gpc6, Ppp3r2 | GO:0044421 | 0.00036759 |
| Proteinaceous extracellular matrix | S100a9, S100g, Des, Fcer2a, Fgl2, Mfap5 | Gpc3, Gpc6, Pls1, Ppp3r2 | GO:0005578 | 0.00053867 |
| Notch signaling pathway | Notch1, Notch2, Jag1 | GO:0007219 | 0.01156 | |
| Regulation of cell growth | Igfbp5, Igfbp6 | GO:0001558 | 0.013648 | |
| Insulin-like growth factor binding | Igfbp5, Igfbp6 | GO:0005520 | 0.013648 | |
| Cell growth | Igfbp5, Igfbp6 | GO:0016049 | 0.013648 | |
| Regulation of growth | Igfbp5, Igfbp6 | GO:0040008 | 0.017012 | |
| Growth | Igfbp5, Bmp6, Igfbp6 | GO:0040007 | 0.030478 | |
| Growth factor binding | Igfbp6, Igfbp5 | GO:0019838 | 0.028955 | |
| Positive regulation of cell death | Srcap, Thsd4 | GO:0010942 | 0.021795 | |
| Positive regulation of apoptotic process | Srcap, Thsd4 | GO:0043065 | 0.021795 | |
| Positive regulation of programmed cell death | Srcap, Thsd4 | GO:0043068 | 0.021795 |
Total RNA from two independent samples per group was analyzed by RNA sequencing. Routine identification of differentially expressed genes was performed using DESeq2. A total of 376 genes in tumors were detected with significantly (p < 0.05) different expression patterns from the lungs of Nrf2 WT versus KO mice. Cancer-relevant gene sets are emphasized in this table.
Bmp6, bone morphogenetic protein 6; Igfbp5, insulin-like growth factor-binding protein 5; Igfbp6, insulin-like growth factor-binding protein 6; KO, knockout; MMP, matrix metalloproteinase; Nrf2, nuclear factor (erythroid-derived 2)-like 2; WT, wild-type.