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Table 3 List of GO biological processes relevant for antigen-presenting cell function found significantly enriched after Bonferroni correction in the 5991 protein coding genes commonly expressed by sorted tonsil-derived Siglec-1 positive cells and the different types of myeloid cells exposed to IFNα
| GO biological process | Genes in GO process | Genes found | Expected | P-value |
|---|---|---|---|---|
| Immune system process (GO:0002376) | 1875 | 791 | 5,10E + 05 | 1,38E-27 |
| Regulation of immune system process (GO:0002682) | 1090 | 439 | 2,96E + 05 | 3,63E-09 |
| Positive regulation of immune system process (GO:0002684) | 636 | 273 | 1,73E + 05 | 2,06E-06 |
| Defense response (GO:0006952) | 1256 | 490 | 3,42E + 05 | 1,30E-08 |
| Regulation of defense response (GO:0031347) | 502 | 218 | 1,37E + 05 | 1,69E-04 |
| Immune response (GO:0006955) | 1153 | 476 | 3,14E + 05 | 3,06E-12 |
| Regulation of immune response (GO:0050776) | 712 | 303 | 1,94E + 05 | 2,89E-07 |
| Positive regulation of immune response (GO:0050778) | 428 | 200 | 1,16E + 05 | 2,52E-06 |
| Activation of immune response (GO:0002253) | 344 | 175 | 9,35E + 04 | 7,68E-08 |
| Immune response-activating signal transduction (GO:0002757) | 296 | 165 | 8,05E + 04 | 2,15E-10 |
| Immune response-regulating signaling pathway (GO:0002764) | 403 | 202 | 1,10E + 05 | 3,18E-09 |
| Immune effector process (GO:0002252) | 399 | 194 | 1,09E + 05 | 1,82E-07 |
| Response to virus (GO:0009615) | 250 | 129 | 6,80E + 04 | 7,85E-05 |
| Innate immune response (GO:0045087) | 773 | 362 | 2,10E + 05 | 6,72E-16 |
| Regulation of innate immune response (GO:0045088) | 246 | 141 | 6,69E + 04 | 4,76E-09 |
| Positive regulation of innate immune response (GO:0045089) | 178 | 106 | 4,84E + 04 | 1,63E-06 |
| Activation of innate immune response (GO:0002218) | 148 | 94 | 4,02E + 04 | 1,04E-06 |
| Innate immune response-activating signal transduction (GO:0002758) | 141 | 91 | 3,83E + 04 | 1,05E-06 |
| Antigen processing and presentation (GO:0019882) | 222 | 142 | 6,04E + 04 | 5,93E-13 |
| Of peptide antigen (GO:0048002) | 186 | 126 | 5,06E + 04 | 8,41E-13 |
| Of peptide antigen via MHC class I (GO:0002474) | 101 | 81 | 2,75E + 04 | 3,02E-10 |
| Of exogenous antigen (GO:0019884) | 172 | 119 | 4,68E + 04 | 1,77E-12 |
| Of exogenous peptide antigen (GO:0002478) | 170 | 117 | 4,62E + 04 | 5,08E-12 |
| Of exogenous peptide antigen via MHC class I (GO:0042590) | 79 | 64 | 2,15E + 04 | 3,07E-07 |
| Of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479) | 75 | 61 | 2,04E + 04 | 9,76E-07 |
| Pattern recognition receptor signaling pathway (GO:0002221) | 138 | 89 | 3,75E + 04 | 1,97E-06 |
| Toll-like receptor signaling pathway (GO:0002224) | 120 | 80 | 3,26E + 04 | 5,80E-06 |
| Toll-like receptor 3 signaling pathway (GO:0034138) | 79 | 57 | 2,15E + 04 | 5,06E-04 |
| Toll-like receptor 4 signaling pathway (GO:0034142) | 95 | 63 | 2,58E + 04 | 1,52E-03 |
| Toll-like receptor 9 signaling pathway (GO:0034162) | 73 | 52 | 1,99E + 04 | 4,80E-03 |
| TRIF-dependent toll-like receptor signaling pathway (GO:0035666) | 76 | 54 | 2,07E + 04 | 2,56E-03 |
| Cellular response to cytokine stimulus (GO:0071345) | 457 | 218 | 1,24E + 05 | 3,25E-08 |
| Cytokine-mediated signaling pathway (GO:0019221) | 339 | 169 | 9,22E + 04 | 1,08E-06 |
| Regulation of type I interferon production (GO:0032479) | 106 | 78 | 2,88E + 04 | 9,02E-08 |
| Positive regulation of type I interferon production (GO:0032481) | 75 | 56 | 2,04E + 04 | 2,13E-04 |
