Table 2.
Differentially expressed genes (DEGs) with a fold change >|2| and p < 0.05 between normal (n = 14) and CIN3/AIS (n = 13) biopsies identified by Oncomine™ Immune Response Research Assay. Fold change, false discovery rate (FDR) adjusted p-values; p-values and gene function for the twenty-seven DEGs are included.
| Gene Name | Fold Change | FDR p-Value | p-Value | Gene Function |
|---|---|---|---|---|
| CDKN2A | 10.7 | 0.0000 | 0.0000 | Tumor marker |
| KRT7 | 4.8 | 0.0002 | 0.0000 | Tumor marker |
| KIAA0101 | 2.1 | 0.0080 | 0.0001 | Epithelial-mesenchymal transition |
| MELK | 2.7 | 0.0128 | 0.0003 | Proliferation |
| TOP2A | 2.5 | 0.0226 | 0.0006 | Epithelial-mesenchymal transition |
| CCNB2 | 2.4 | 0.0404 | 0.0013 | Proliferation |
| BUB1 | 2.4 | 0.0678 | 0.0029 | Proliferation |
| CDK1 | 2.6 | 0.0678 | 0.0029 | Proliferation |
| MKI67 | 2.6 | 0.1081 | 0.0052 | Proliferation |
| TNFRSF18 | 2.0 | 0.1126 | 0.0059 | Lymphocyte Infiltrate (Tregs) |
| FOXM1 | 2.3 | 0.1587 | 0.0108 | Proliferation |
| TNFRSF4 | 2.4 | 0.1953 | 0.0143 | Lymphocyte Infiltrate (Tregs) |
| CDKN3 | 2.0 | 0.2887 | 0.0363 | Proliferation |
| BRCA2 | 2.0 | 0.009 | 0.0001 | Tumor marker |
| JCHAIN | 2.25 | 0.2635 | 0.02970 | B-cell marker |
| CMKLR1 | 3.02 | 0.2799 | 0.03310 | Dendritic cell macrophage marker |
| NCAM1 | −10.4 | 0.0000 | 0.0000 | NK-cell |
| ARG1 | −11.3 | 0.0128 | 0.0002 | Macrophage marker |
| CD160 | −2.3 | 0.0678 | 0.0026 | Checkpoint pathways |
| CX3CR1 | −2.2 | 0.0832 | 0.0038 | Lymphocyte Infiltrate |
| ALOX15B | −4.0 | 0.1108 | 0.0056 | Macrophage marker |
| IL18 | −2.3 | 0.2057 | 0.0171 | T-cell regulation |
| CXCL11 | −2.5 | 0.2635 | 0.0284 | T-cell activation |
| CCL5 | −2.1 | 0.3275 | 0.0478 | Lymphocyte Infiltrate |
| LEXM | −3.14 | 0.13830 | 0.00840 | T-cell differentiation |
| HLA-G | −3.04 | 0.26350 | 0.02680 | Antigen processing |
| HLA-DQA2 | −2.96 | 0.26350 | 0.03050 | Antigen processing |