Table 5.
Gene ontology showing enriched biological processes, molecular functions, and cellular components of hepatic innate and adaptive immune genes in low- compared with high-RFI steers1
| Gene (s) | Raw P-value | FDR2 | |
|---|---|---|---|
| GO biological process | |||
| Positive regulation of immunoglobulin production | IL13, IL6, TBX21, IL4, IL | 1.23E-09 | 2.42E-07 |
| Positive regulation of interleukin-10 production | IL13, IL6, CD40LG, IL4, | 3.75E-08 | 5.62E-06 |
| T-helper cell differentiation | GATA3, IL6, TBX21, IL4 | 5.39E-08 | 7.68E-06 |
| Macrophage activation | IL13, IFNG, IL4, TNF | 9.23E-08 | 1.19E-05 |
| Positive regulation of interleukin-13 production | GATA3, IL4 | 1.67E-07 | 1.96E-05 |
| Vascular endothelial growth factor production | TNF, IL6, IFN | 2.22E-07 | 2.46E-05 |
| Microglial cell activation | IFNG, IL4, TNF | 5.63E-07 | 5.55E-05 |
| Positive regulation of cytokine production involved in inflammatory response | IL6, TNF, IL17A | 2.30E-06 | 1.80E-04 |
| Regulation of acute inflammatory response | IL6, IL4, TNF | 2.92E-06 | 2.19E-04 |
| Regulation of complement-dependent cytotoxicity | IL13, IL4 | 6.31E-06 | 4.07E-04 |
| Wnt signaling pathway involved in kidney development | GATA3 | 1.05E-05 | 6.22E-04 |
| Positive regulation of vitamin metabolic process | IFNG, TNF | 1.05E-05 | 6.36E-04 |
| Detection of lipopolysaccharide | LY96 | 2.94E-05 | 1.50E-03 |
| Positive regulation of mast cell activation involved in immune response | IFNG, TNF | 6.91E-05 | 2.96E-03 |
| Positive regulation of interleukin-23 production | GATA3 | 3.78E-05 | 1.82E-03 |
| Positive regulation of interleukin-5 production | GATA3 | 3.78E-05 | 1.82E-03 |
| Positive regulation of isotype switching to IgG isotypes | TBX21, IL4 | 4.72E-05 | 2.17E-03 |
| GO molecular function | |||
| Tumor necrosis factor receptor binding | TNF, CD40LG, | 3.51E-10 | 1.97E-07 |
| CD40 receptor binding | CD40LG | 3.54E-08 | 1.59E-05 |
| CXCR chemokine receptor binding | CXCL8, CXCL10 | 9.73E-07 | 3.65E-04 |
| Interleukin-8 receptor binding | CXCL8, | 6.31E-06 | 2.18E-03 |
| Toll-like receptor 4 binding | LY96 | 1.58E-05 | 4.73E-03 |
| Interleukin-2 receptor binding | GATA3, IL2 | 2.20E-05 | 5.83E-03 |
| Lipopolysaccharide immune receptor activity | LY96 | 2.94E-05 | 7.34E-03 |
| Toll-like receptor binding | LY96 | 9.51E-05 | 2.14E-02 |
| GO cellular component | |||
| Lipopolysaccharide receptor complex | LY96 | 3.78E-05 | 1.77E-02 |
1Low-RFI = feed-efficient beef steers, high-RFI = feed inefficient beef steers
2False discovery rate (FDR; relative to high-RFI)