Table 2:
Gene ontology analysis of genes with significantly altered expression in brain death kidneys compared to naïve
| Term | # Genes Represented | Fold Enrichment | FDR |
|---|---|---|---|
| Biological Processes up-regulated in BD vs naïve: 251 known genes | |||
| positive regulation of cell communication (GO:0010647) | 38 | 4.1 | 1.86E-09 |
| positive regulation of signaling (GO:0023056) | 38 | 4.08 | 2.12E-09 |
| response to external stimulus (GO:0009605) | 39 | 3.82 | 7.19E-09 |
| response to cytokine (GO:0034097) | 26 | 5.4 | 5.16E-08 |
| regulation of cell migration (GO:0030334) | 25 | 5.43 | 1.19E-07 |
| defense response (GO:0006952) | 29 | 4.54 | 1.65E-07 |
| regulation of cell population proliferation (GO:0042127) | 34 | 3.83 | 2.35E-07 |
| regulation of cell motility (GO:2000145) | 25 | 5.11 | 4.02E-07 |
| positive regulation of cell migration (GO:0030335) | 18 | 7.16 | 1.46E-06 |
| regulation of cellular component movement (GO:0051270) | 25 | 4.72 | 2.02E-06 |
| regulation of locomotion (GO:0040012) | 25 | 4.63 | 2.87E-06 |
| positive regulation of cell motility (GO:2000147) | 18 | 6.85 | 2.89E-06 |
| cellular response to cytokine stimulus (GO:0071345) | 22 | 5.09 | 6.43E-06 |
| positive regulation of locomotion (GO:0040017) | 18 | 6.43 | 7.35E-06 |
| epithelium development (GO:0060429) | 24 | 4.18 | 4.53E-05 |
| inflammatory response (GO:0006954) | 16 | 6.59 | 4.61E-05 |
| response to oxygen-containing compound (GO:1901700) | 25 | 3.95 | 6.43E-05 |
| cell migration (GO:0016477) | 22 | 4.43 | 7.25E-05 |
| tube development (GO:0035295) | 21 | 4.65 | 0.000073 |
| localization of cell (GO:0051674) | 23 | 4.22 | 7.92E-05 |
| cell motility (GO:0048870) | 23 | 4.22 | 7.92E-05 |
| cell chemotaxis (GO:0060326) | 12 | 8.74 | 0.000207 |
| Biological Processes down-regulated in BD vs naïve: 143 known genes | |||
| organic acid metabolic process (GO:0006082) | 28 | 7.17 | 2.85E-12 |
| carboxylic acid metabolic process (GO:0019752) | 27 | 7.42 | 4.5E-12 |
| oxidation-reduction process (GO:0055114) | 31 | 5.9 | 1.06E-11 |
| oxoacid metabolic process (GO:0043436) | 27 | 7.08 | 1.36E-11 |
| small molecule metabolic process (GO:0044281) | 36 | 4.74 | 2.48E-11 |
| metabolic process (GO:0008152) | 87 | 1.93 | 1.29E-09 |
| lipid metabolic process (GO:0006629) | 24 | 5.65 | 6.15E-08 |
| cellular lipid metabolic process (GO:0044255) | 20 | 6.12 | 1.01E-06 |
| fatty acid metabolic process (GO:0006631) | 10 | 9.91 | 0.000751 |
| organic acid catabolic process (GO:0016054) | 9 | 11.21 | 0.00122 |
| carboxylic acid catabolic process (GO:0046395) | 9 | 11.21 | 0.00122 |
| monocarboxylic acid metabolic process (GO:0032787) | 12 | 7.06 | 0.00134 |
| small molecule catabolic process (GO:0044282) | 10 | 8.53 | 0.0028 |
| alpha-amino acid metabolic process (GO:1901605) | 9 | 9.51 | 0.00456 |
| blood coagulation (GO:0007596) | 7 | 15.09 | 0.00458 |
Gene ontology analysis (Panther over-representation, Fisher’s Exact Test with FDR correction) of kidney gene expression showed that BD kidneys (n=16) significantly upregulated genes in pathways associated with immune response and down-regulated genes in metabolic pathways when compared to naïve (n=12). 251 known genes showed >2-fold increase in expression in BD vs naïve, FDR<0.05. 143 known genes showed >2-fold decrease in expression in BD compared naïve, FDR<0.05.