Table 1.
Pathway analysis (summarized)
| Pathway | # genes | % | p value | Genesa |
|---|---|---|---|---|
| Cell cycle/checkpoint control | 16 | 4.3 | 1.1E−16 | ATR, BUB1B, CDC45, CDK2, KIF11, MCM2, MCM3, MSH2, MSH6, ORC1, PCNA, PRIM2, RCC2, TMPO, VRK1, WEE1 |
| Cytoskeletal signalling | 13 | 3.2 | 7.7E−11 | ACTG2, DES, GNB2L1, LMNB1, MST4, MYH10, PFN1, PPP1R12A, RCC2, ROCK1, STMN1, TMPO, VAV1 |
| Lymphocyte signalling | 9 | 2.4 | 2.8E−09 | BCL6, HCK, INPP5D, LCP1, MECOM, NQO1, PLCG2, PSIP1, SPI1 |
| Cell cycle_Role of APC in cell cycle regulation | 7 | 1.9 | 3.3E−09 | BUB1, BUB1B, CCNB2, CDC27, CDK2, FBXO5, ORC1 |
| Cell cycle_Transition and termination of DNA replication | 6 | 1.6 | 1.4E−08 | CDK2, LIG1, MCM2, PCNA, PRIM2, RFC3 |
| Immune response_BCR pathway | 7 | 1.9 | 3.1E−08 | BCL6, CD79B, CR2, INPP5D, PIK3R1, PLCG2, VAV1 |
| Chemokine signalling pathway (GeneDecks-KEGG) | 8 | 2.1 | 2.7E−07 | CCL28, CXCL13, CXCR4, HCK, PIK3R1, ROCK1, TIAM1, VAV1 |
| Leucocyte transendothelial migration (GeneDecks-KEGG) | 6 | 1.6 | 1.6E−06 | CDH5, CXCR4, PIK3R1, PLCG2, ROCK1, VAV1 |
| Focal adhesion (GeneDecks-KEGG) | 7 | 1.9 | 3.2E−06 | CAPN2, COL1A1, COL3A1, PIK3R1, PPP1R12A, ROCK1, VAV1 |
| NFKB signalling Targets | 5 | 1.3 | 8.2E−06 | AGT, CD40, CFB, LTB, NQO1 |
| hsa03030:DNA replication | 6 | 1.7 | 1.7E−03 | RFC3, LIG1, PRIM2, PCNA, MCM2, MCM3 |
| hsa03430:Mismatch repair | 5 | 1.4 | 2.1E−03 | MSH6, RFC3, MSH2, LIG1, PCNA |
| hsa04662:B cell receptor signalling pathway | 7 | 1.9 | 9.9E−03 | CR2, PLCG2, PIK3AP1, CD79B, INPP5D, VAV1, PIK3R1 |
| hsa00230:Purine metabolism | 8 | 2.2 | 8.2E−02 | ENPP3, RRM2, AK1, PRIM2, GUCY1B3, RRM2B, PAPSS2, ADA |
| hsa04666:Fc gamma R-mediated phagocytosis | 8 | 1.9 | 2.9E−02 | ACTG2, HCK, PLCG2, PIKFYVE, ARPC4, INPP5D, VAV1, PIK3R1 |
| hsa04672:Intestinal immune network for IgA production | 5 | 1.4 | 3.1E−02 | CXCR4, TNFRSF17, PIGR, CD40, CCL28 |
| hsa04115:p53 signalling pathway | 5 | 1.4 | 8.5E−02 | CCNB2, RRM2, RRM2B, ATR, CDK2 |
| hsa03320:PPAR signalling pathway | 5 | 1.4 | 8.9E−02 | HMGCS2, APOC3, PPARG, FABP2, MMP1 |
DAVID pathways (hsa) with a p value of <0.1 (EASE score) and GeneDecks pathways with a p value of <0.05 were retrieved. The complete list of pathways is listed in supplementary Table S2. Official gene symbols are presented. Down-regulated genes are underlined and shown in bold