Table 3 Top associated Gene Ontologies with the anti-TNF response at baseline and week 20 and with the longitudinal change
GOs associated with differential expression: week 0 | ||||
|---|---|---|---|---|
ID | Description | Count | P value | Gene group |
GO:0044772 | Mitotic cell cycle phase transition | 75 | 3.64e−17 | Non-response |
GO:0044770 | Cell cycle phase transition | 77 | 1.07e−16 | Non-response |
GO:0140014 | Mitotic nuclear division | 47 | 2.39e−13 | Non-response |
GO:0000280 | Nuclear division | 56 | 3.70e−12 | Non-response |
GO:0051301 | Cell division | 70 | 1.81e−11 | Non-response |
GO:0007346 | Regulation of mitotic cell cycle | 71 | 2.04e−11 | Non-response |
GO:0048285 | Organelle fission | 57 | 4.90e−11 | Non-response |
GO:0000070 | Mitotic sister chromatid segregation | 31 | 5.86e−11 | Non-response |
GO:0000819 | Sister chromatid segregation | 33 | 3.24e−10 | Non-response |
GOs associated with differential expression: week 20 | ||||
GO:0043299 | Leukocyte degranulation | 40 | 3.97e−11 | Non-response |
GO:0042119 | Neutrophil activation | 38 | 1.07e−10 | Non-response |
GO:0036230 | Granulocyte activation | 38 | 1.46e−10 | Non-response |
GO:0002275 | Myeloid cell activation involved in immune response | 39 | 3.61e−10 | Non-response |
GO:0002444 | Myeloid leukocyte mediated immunity | 39 | 6.36e−10 | Non-response |
GOs associated with longitudinal change in responders | ||||
Gene Ontology | Description | Count | P value | Gene group |
GO:0043299 | Leukocyte degranulation | 74 | 3.24e−32 | Downregulated |
GO:0002275 | Myeloid cell activation involved in immune response | 74 | 1.14e−31 | Downregulated |
GO:0002444 | Myeloid leukocyte mediated immunity | 73 | 2.99e−30 | Downregulated |
GO:0036230 | Granulocyte activation | 68 | 1.40e−28 | Downregulated |
GO:0042119 | Neutrophil activation | 67 | 5.88e−28 | Downregulated |
GO:0002283 | Neutrophil activation involved in immune response | 65 | 1.18e−26 | Downregulated |
GO:0002446 | Neutrophil mediated immunity | 65 | 5.17e−26 | Downregulated |
GO:0043312 | Neutrophil degranulation | 64 | 5.65e−26 | Downregulated |
GO:0030198 | Extracellular matrix organization | 53 | 4.20e−16 | Upregulated |
GO:0043062 | Extracellular structure organization | 53 | 4.01e−13 | Upregulated |
GO:0009617 | Response to bacterium | 50 | 1.64e−11 | Downregulated |
GO:0002764 | Immune response-regulating signaling pathway | 45 | 2.69e−11 | Downregulated |
GO:0002757 | Immune response-activating signal transduction | 42 | 2.06e−10 | Downregulated |
GO:0002250 | Adaptive immune response | 39 | 2.23e−10 | Downregulated |
GO:0045088 | Regulation of innate immune response | 37 | 6.63e−10 | Downregulated |
GO:0001501 | Skeletal system development | 54 | 7.19e−10 | Upregulated |