Table 2.
Gene ontology analysis showing the top 10 biological processes up- or downregulated by fold enrichment in hypertensive nephrosclerosis kidney biopsies versus biopsies from healthy kidney donors
| Biological process | Total | No. found | No. expected | Fold enrichment | Raw P value | FDR |
|---|---|---|---|---|---|---|
| Cellular amino acid catabolic process | 56 | 10 | 0.70 | −12.81 | 1.05E-07 | 1.28E-05 |
| Fatty acid beta-oxidation | 20 | 3 | 0.25 | −11.96 | 2.77E-03 | 3.98E-02 |
| Response to interferon gamma | 58 | 9 | 0.87 | +10.40 | 5.80E-07 | 1.57E-05 |
| Gluconeogenesis | 23 | 3 | 0.29 | −10.40 | 3.96E-03 | 4.83–02 |
| Cellular defense response | 105 | 13 | 1.57 | +8.30 | 2.05E-08 | 2.50E-06 |
| Cellular amino acid metabolic process | 230 | 22 | 2.89 | −7.62 | 8.65E-13 | 2.11E-10 |
| Cellular amino acid biosynthetic process | 64 | 6 | 0.80 | −7.47 | 2.31E-04 | 7.04E-03 |
| Cellular calcium ion homeostasis | 115 | 12 | 1.72 | +6.99 | 3.94E-07 | 1.37E-05 |
| Cytokine-mediated signaling pathway | 60 | 6 | 0.9 | +6.70 | 4.17E-04 | 5.36E-03 |
| Monosaccharide metabolic process | 76 | 6 | 0.95 | −6.29 | 5.45E-04 | 1.21E-02 |
Note: Data from separate gene ontology (GO) enrichment analysis of 306 upregulated and 267 downregulated genes. Analyses done with PANTHER application and genes with false discovery rate (FDR) <0.05 and |FC| >1.5 were included. Table shows PANTHER GO-Slim Biological Processes. GO is a framework for modeling biological function using defined concepts/classes to describe gene function and the relationships between these concepts. GO slims are cut-down versions of the full GO ontologies containing a subset of the most important and instructive terms, that is, an output particularly useful for giving a summary of the results when broad classification of gene product function is required.