Table 2.
The most significant pathways identified by SPCA analysis in the WTCCC CD GWA dataset.
| Gene set | No. of genes | No. of SNPs | P value | Function |
|---|---|---|---|---|
| GO:0009595 | 9 | 74 | 9.71E-06 | detection of biotic stimulus |
| GO:0009991 | 88 | 774 | 1.04E-05 | response to extracellular stimulus |
| KEGG: 04060 | 215 | 1992 | 1.04E-05 | cytokine cytokine receptor interaction |
| GO:0031668 | 34 | 216 | 1.21E-05 | cellular response to extracellular stimulus |
| GO:0006914 | 27 | 188 | 1.49E-05 | autophagy |
| GO:0016236 | 10 | 59 | 2.01E-05 | macroautophagy |
| GO:0051606 | 46 | 804 | 2.03E-05 | detection of stimulus |
| GO:0050715 | 8 | 114 | 2.18E-05 | positive regulation of cytokine secretion |
| GO:0050701 | 8 | 112 | 2.20E-05 | interleukin-1 secretion |
| GO:0000045 | 7 | 42 | 2.66E-05 | autophagic vacuole formation |
| GO:0043122 | 84 | 563 | 2.70E-05 | regulation of I-KappB kinase/NF-KappaB cascade |
| GO:0043123 | 78 | 509 | 2.74E-05 | positive regulation of I-KappB kinase/NF-KappaB cascade |
| GO:0009966 | 198 | 2365 | 3.09E-05 | regulation of signal transduction |
| GO:0009967 | 114 | 1400 | 3.35E-05 | positive regulation of signal transduction |
| KEGG: 04630 | 132 | 1187 | 3.50E-05 | Jak-STAT signaling pathway |
| GO:0051239 | 139 | 1992 | 3.73E-05 | regulation of multicellular organismal process |
| GO:0051259 | 36 | 699 | 4.28E-05 | protein oligomerization |
| GO:0050707 | 14 | 130 | 4.47E-05 | regulation of cytokine secretion |
| GO:0001819 | 14 | 126 | 4.51E-05 | positive regulation of cytokine production |
| GO:0050714 | 9 | 123 | 4.54E-05 | positive regulation of protein secretion |
| GO:0051240 | 60 | 522 | 5.02E-05 | positive regulation of multicellular organismal process |
| GO:0045087 | 115 | 1108 | 5.07E-05 | innate immune response |
| GO:0006461 | 151 | 2332 | 5.19E-05 | protein complex assembly |
| GO:0009581 | 22 | 180 | 5.28E-05 | detection of external stimulus |
| GO:0051704 | 141 | 1172 | 6.36E-05 | multi-organism process |
| GO:0051707 | 68 | 443 | 6.70E-05 | response to other organism |
| GO:0006952 | 218 | 1989 | 6.94E-05 | defense response |
| GO:0009607 | 97 | 660 | 7.25E-05 | response to biotic stimulus |
| GO:0051099 | 25 | 289 | 7.45E-05 | positive regulation of binding |
| GO:0043388 | 23 | 271 | 7.49E-05 | positive regulation of DNA binding |
| GO:0051091 | 21 | 266 | 7.51E-05 | positive regulation of transcription factor activity |
| GO:0050708 | 19 | 219 | 7.54E-05 | regulation of protein secretion |
| GO:0009617 | 23 | 174 | 7.83E-05 | response of bacterium |
| GO:0051047 | 17 | 166 | 7.89E-05 | positive regulation of secretion |
| GO:0001817 | 23 | 232 | 7.93E-05 | regulation of cytokine production |
| GO:0050663 | 16 | 187 | 8.12E-05 | cytokine secretion |
| GO:0051092 | 15 | 233 | 9.30E-05 | activation of NF-KappaB transcription factor |
| GO:0032940 | 97 | 1657 | 9.47E-05 | secretion by cell |
| GO:0001816 | 63 | 570 | 9.54E-05 | cytokine production |
| GO:0042742 | 18 | 143 | 1.00E-03 | defense response to bacterium |