Table 3.
Significantly enriched functional pathways in type A and B3 thymomas and TSCC using normalized enrichment scores (NES) of >1.6 and p < 0.05 between at least two comparisons; NP, normalized p-values (24). The “exemplary genes” are the genes with the strongest (>1.3-fold) significant (p < 0.05) differential expression in the indicated Gene Ontology pathway. Genes given in bold are discussed in the text.
| Typical for | Pathway (gene ontology) | Exemplary genes | B3_A |
TSCC_A |
TSCC_B3 |
|||
|---|---|---|---|---|---|---|---|---|
| NES | NP | NES | NP | NES | NP | |||
| All | DNA damage response signal transduction by P53 class mediator | IFI16 | 1.74 | 0.01 | 1.87 | 0.00 | 1.71 | 0.01 |
| A | Cell migration | IL8RB, KAL1, SAA1 | −1.70 | 0.01 | −1.84 | 0.00 | −0.90 | 0.61 |
| Transcriptional corepressor activity | ID4 | −1.70 | 0.01 | −1.76 | 0.00 | −1.12 | 0.31 | |
| Cytoplasm organization and biogenesis | ITGA6 | −1.77 | 0.00 | −1.66 | 0.00 | −0.92 | 0.57 | |
| B3 | Structure molecule activity | RPS18 | −1.98 | 0.00 | 0.90 | 0.67 | 2.13 | 0.00 |
| Structural constitute of ribosome | RPS6, RPS18 | −2.28 | 0.00 | 0.78 | 0.81 | 2.45 | 0.00 | |
| Translation | −1.87 | 0.00 | 0.60 | 0.98 | 1.79 | 0.00 | ||
| ADP binding | −1.71 | 0.01 | 0.82 | 0.70 | 1.90 | 0.00 | ||
| RNA binding | RPS6 | −1.80 | 0.00 | −0.64 | 0.97 | 1.74 | 0.01 | |
| C | Caspase activation | PMAIP1 | 1.02 | 0.45 | 1.67 | 0.03 | 1.90 | 0.00 |
| Antigen binding | IGHG3 | 0.74 | 0.78 | 1.66 | 0.01 | 1.66 | 0.02 | |