Table 2. Differential gene expression between MF ILC and adjacent normal tissue.
| Gene | FC | Unadjusted P-value | Adjusted P-value | qval (FDR) | Tumor expression |
|---|---|---|---|---|---|
| COL11A1 | 24.99 | 1.33E-03 | 8.97E-01 | 1.71E-02 | ↑ |
| PKMYT1 | 11.66 | 2.30E-05 | 1.67E-02 | 2.79E-03 | ↑ |
| COMP | 9.23 | 2.35E-03 | 1.00E+00 | 2.29E-02 | ↑ |
| COL1A1 | 8.40 | 2.96E-05 | 2.14E-02 | 3.08E-03 | ↑ |
| SIX1 | 7.93 | 2.15E-03 | 1.00E+00 | 2.20E-02 | ↑ |
| BMP8A | 6.94 | 2.01E-03 | 1.00E+00 | 2.16E-02 | ↑ |
| ZIC2 | 5.47 | 4.55E-03 | 1.00E+00 | 3.46E-02 | ↑ |
| CCNE2 | 5.05 | 6.68E-03 | 1.00E+00 | 4.47E-02 | ↑ |
| UBE2T | 5.02 | 2.04E-05 | 1.48E-02 | 2.79E-03 | ↑ |
| MCM2 | 4.56 | 2.74E-04 | 1.93E-01 | 7.40E-03 | ↑ |
| COL3A1 | 4.50 | 5.76E-05 | 4.16E-02 | 4.67E-03 | ↑ |
| FN1 | 4.36 | 2.36E-04 | 1.67E-01 | 7.11E-03 | ↑ |
| CREB3L1 | 4.30 | 2.43E-06 | 1.77E-03 | 8.87E-04 | ↑ |
| LEF1 | 4.19 | 9.45E-04 | 6.46E-01 | 1.47E-02 | ↑ |
| INHBA | 4.14 | 2.07E-03 | 1.00E+00 | 2.19E-02 | ↑ |
| CDKN2A | 4.08 | 4.68E-03 | 1.00E+00 | 3.52E-02 | ↑ |
| COL5A2 | 3.92 | 1.50E-05 | 1.09E-02 | 2.73E-03 | ↑ |
| E2F1 | 3.68 | 2.19E-04 | 1.56E-01 | 7.11E-03 | ↑ |
| COL1A2 | 3.58 | 4.26E-04 | 2.97E-01 | 9.26E-03 | ↑ |
| GATA3 | 3.50 | 2.25E-04 | 1.59E-01 | 7.11E-03 | ↑ |
| COL5A1 | 3.37 | 1.58E-04 | 1.13E-01 | 6.97E-03 | ↑ |
| CACNA1D | 3.05 | 2.58E-04 | 1.82E-01 | 7.23E-03 | ↑ |
| IL20RB | 3.00 | 6.78E-04 | 4.66E-01 | 1.15E-02 | ↑ |
| CDKN2B | 2.92 | 6.62E-05 | 4.78E-02 | 4.84E-03 | ↑ |
| CBLC | 2.91 | 3.58E-03 | 1.00E+00 | 2.90E-02 | ↑ |
| HIST1H3H | 2.76 | 1.62E-04 | 1.16E-01 | 6.97E-03 | ↑ |
| BRIP1 | 2.49 | 3.04E-03 | 1.00E+00 | 2.64E-02 | ↑ |
| PAX8 | 2.48 | 6.26E-03 | 1.00E+00 | 4.27E-02 | ↑ |
| POLE2 | 2.43 | 1.08E-05 | 7.90E-03 | 2.64E-03 | ↑ |
| TGFB3 | 2.41 | 1.01E-04 | 7.22E-02 | 5.00E-03 | ↑ |
| FEN1 | 2.38 | 1.33E-03 | 8.98E-01 | 1.71E-02 | ↑ |
| MAPT | 2.32 | 1.32E-03 | 8.90E-01 | 1.71E-02 | ↑ |
| CCND1 | 2.28 | 3.43E-04 | 2.40E-01 | 8.35E-03 | ↑ |
| EZH2 | 2.18 | 7.25E-04 | 4.98E-01 | 1.19E-02 | ↑ |
| CREB3L4 | 2.07 | 3.17E-03 | 1.00E+00 | 2.68E-02 | ↑ |
| FIGF | 0.06 | 1.50E-03 | 1.00E+00 | 1.80E-02 | ↓ |
| RELN | 0.12 | 4.05E-03 | 1.00E+00 | 3.11E-02 | ↓ |
| PROM1 | 0.13 | 1.40E-03 | 9.44E-01 | 1.74E-02 | ↓ |
| SFRP1 | 0.15 | 5.02E-03 | 1.00E+00 | 3.66E-02 | ↓ |
| MMP7 | 0.17 | 1.52E-03 | 1.00E+00 | 1.80E-02 | ↓ |
| NTRK2 | 0.22 | 3.62E-04 | 2.53E-01 | 8.52E-03 | ↓ |
| LAMB3 | 0.23 | 2.24E-03 | 1.00E+00 | 2.22E-02 | ↓ |
| SPRY2 | 0.24 | 2.13E-04 | 1.51E-01 | 7.11E-03 | ↓ |
| KIT | 0.26 | 2.17E-04 | 1.54E-01 | 7.11E-03 | ↓ |
| CDH1 | 0.28 | 4.57E-04 | 3.17E-01 | 9.26E-03 | ↓ |
| IL22RA1 | 0.29 | 4.86E-03 | 1.00E+00 | 3.59E-02 | ↓ |
| LIFR | 0.29 | 4.47E-04 | 3.11E-01 | 9.26E-03 | ↓ |
| MET | 0.30 | 5.16E-04 | 3.57E-01 | 9.90E-03 | ↓ |
| EGFR | 0.30 | 2.93E-04 | 2.06E-01 | 7.63E-03 | ↓ |
| FGF10 | 0.31 | 1.07E-03 | 7.31E-01 | 1.58E-02 | ↓ |
| ITGB4 | 0.31 | 8.07E-05 | 5.81E-02 | 5.00E-03 | ↓ |
| FLNC | 0.31 | 5.65E-03 | 1.00E+00 | 3.97E-02 | ↓ |
| PAK3 | 0.32 | 7.08E-03 | 1.00E+00 | 4.66E-02 | ↓ |
| ITGB3 | 0.35 | 1.66E-03 | 1.00E+00 | 1.90E-02 | ↓ |
| PDGFRA | 0.36 | 5.60E-04 | 3.87E-01 | 1.01E-02 | ↓ |
| CACNB2 | 0.37 | 1.03E-04 | 7.36E-02 | 5.00E-03 | ↓ |
| ITGB8 | 0.38 | 1.19E-03 | 8.05E-01 | 1.66E-02 | ↓ |
| ZBTB16 | 0.38 | 1.78E-03 | 1.00E+00 | 2.00E-02 | ↓ |
| FZD7 | 0.38 | 1.72E-04 | 1.23E-01 | 6.99E-03 | ↓ |
| CREB5 | 0.41 | 1.22E-03 | 8.27E-01 | 1.68E-02 | ↓ |
| KLF4 | 0.41 | 2.17E-03 | 1.00E+00 | 2.20E-02 | ↓ |
| TCF7L1 | 0.43 | 5.59E-04 | 3.87E-01 | 1.01E-02 | ↓ |
| MAML2 | 0.46 | 2.43E-04 | 1.72E-01 | 7.11E-03 | ↓ |
| MYC | 0.46 | 5.21E-03 | 1.00E+00 | 3.71E-02 | ↓ |
| PLD1 | 0.47 | 4.84E-04 | 3.36E-01 | 9.55E-03 | ↓ |
| GAS1 | 0.47 | 6.08E-03 | 1.00E+00 | 4.23E-02 | ↓ |
| ITGB6 | 0.48 | 3.36E-04 | 2.36E-01 | 8.35E-03 | ↓ |
| TGFBR2 | 0.48 | 6.75E-04 | 4.65E-01 | 1.15E-02 | ↓ |
| CDC14A | 0.50 | 3.32E-03 | 1.00E+00 | 2.75E-02 | ↓ |
Differential gene expression: ILC tumors versus adjacent normal tissue, FDR<0.05 and FC>2 or <0.5, ordered by direction and fold change. FC = fold change. FDR = false discovery rate.