Table 4.
Gene Ontology Biological Processes Enriched Among Genes Co-Expressed With NAT2 (Selected)
| Category | Rank | GO Term ID | GO Term | p Value | P_FDR_adja | No. Genes | Genes |
|---|---|---|---|---|---|---|---|
| Xenobiotic metabolism | 5 | GO : 0017144 | Drug metabolic process | 1.00E-10 | 2.47E-07 | 12 | ADH4|ADH6|AGXT|AGXT2|CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2|HAO1|HMGCS2|NR1I2 |
| 31 | GO : 0042737 | Drug catabolic process | 3.74E-07 | 1.33E-04 | 6 | CYP2C18|CYP2C19|CYP2C9|CYP3A4|HAO1|NR1I2 | |
| 6 | GO : 0042738 | Exogenous drug catabolic process | 3.10E-09 | 5.77E-06 | 5 | CYP2C18|CYP2C19|CYP2C9|CYP3A4|NR1I2 | |
| GO : 0097267 | Omega-hydroxylase P450 pathway | 8.43E-07 | 2.51E-04 | 3 | CYP2C19|CYP2C9|CYP4F2 | ||
| 17 | GO : 0019373 | Epoxygenase P450 pathway | 7.54E-08 | 4.89E-05 | 4 | CYP2C18|CYP2C19|CYP2C9|CYP4F2 | |
| Lipid; fatty acid; cholesterol |
21 | GO : 0033344 | Cholesterol efflux | 1.11E-07 | 5.84E-05 | 4 | ABCG8|APOA5|APOB|APOC3 |
| 50 | GO : 0030301 | Cholesterol transport | 3.80E-06 | 8.38E-04 | 4 | ABCG8|APOA5|APOB|APOC3 | |
| 42 | GO : 0006869 | Lipid transport | 1.64E-06 | 4.29E-04 | 7 | ABCG8|APOA5|APOB|APOC3|FABP1|NR1H4|PLA2G12B | |
| 44 | GO : 0010876 | Lipid localization | 2.63E-06 | 6.58E-04 | 7 | ABCG8|APOA5|APOB|APOC3|FABP1|NR1H4|PLA2G12B | |
| 10 | GO : 0042632 | Cholesterol homeostasis | 9.80E-09 | 1.06E-05 | 6 | ABCG8|APOA5|APOB|APOC3|NR1H4|PLA2G12B | |
| 26 | GO : 0055088 | Lipid homeostasis | 2.15E-07 | 8.95E-05 | 6 | ABCG8|APOA5|APOB|APOC3|NR1H4|PLA2G12B | |
| 3 | GO : 0006629 | Lipid metabolic process | 0.00E + 00 | 1.13E-08 | 18 | ADH4|ADH6|APOA5|APOB|APOC3|CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2|FABP1|GBA3|HAO1|HMGCS2|MOGAT2|NR1H4|NR1I2|PLA2G12B | |
| 4 | GO : 0044255 | Cellular lipid metabolic process | 0.00E + 00 | 2.73E-08 | 16 | ADH4|ADH6|APOA5|APOB|APOC3|CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2|FABP1|GBA3|HAO1|HMGCS2|MOGAT2|PLA2G12B | |
| 43 | GO : 0034370 | Triglyceride-rich lipoprotein particle remodeling | 2.54E-06 | 6.52E-04 | 3 | APOA5|APOB|APOC3 | |
| 8 | GO : 0016042 | Lipid catabolic process | 4.60E-09 | 6.39E-06 | 9 | APOA5|APOB|APOC3|CYP3A4|CYP4F2|FABP1|GBA3|HAO1|PLA2G12B | |
| 18 | GO : 0044242 | Cellular lipid catabolic process | 8.62E-08 | 5.03E-05 | 7 | APOA5|APOB|APOC3|CYP4F2|FABP1|GBA3|HAO1 | |
| 27 | GO : 0019433 | Triglyceride catabolic process | 2.19E-07 | 8.95E-05 | 4 | APOA5|APOB|APOC3|FABP1 | |
| 35 | GO : 0046464 | Acylglycerol catabolic process | 6.47E-07 | 1.98E-04 | 4 | APOA5|APOB|APOC3|FABP1 | |
| 47 | GO : 0046503 | Glycerolipid catabolic process | 3.53E-06 | 8.27E-04 | 4 | APOA5|APOB|APOC3|FABP1 | |
| 29 | GO : 0006641 | Triglyceride metabolic process | 3.34E-07 | 1.24E-04 | 5 | APOA5|APOB|APOC3|FABP1|MOGAT2 | |
| 39 | GO : 0006639 | Acylglycerol metabolic process | 1.36E-06 | 3.84E-04 | 5 | APOA5|APOB|APOC3|FABP1|MOGAT2 | |
| 34 | GO : 0070328 | Triglyceride homeostasis | 6.47E-07 | 1.98E-04 | 4 | APOA5|APOC3|NR1H4|PLA2G12B | |
| 36 | GO : 0055090 | Acylglycerol homeostasis | 6.47E-07 | 1.98E-04 | 4 | APOA5|APOC3|NR1H4|PLA2G12B | |
| 46 | GO : 0001676 | Long-chain fatty acid metabolic process | 3.13E-06 | 7.49E-04 | 5 | CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2 | |
| 33 | GO : 0046461 | Neutral lipid catabolic process | 6.47E-07 | 1.98E-04 | 4 | APOA5|APOB|APOC3|FABP1 | |
| 41 | GO : 0006638 | Neutral lipid metabolic process | 1.43E-06 | 3.84E-04 | 5 | APOA5|APOB|APOC3|FABP1|MOGAT2 | |
| Sterols; Steroids | 11 | GO : 0055092 | Sterol homeostasis | 1.06E-08 | 1.06E-05 | 6 | ABCG8|APOA5|APOB|APOC3|NR1H4|PLA2G12B |
| 14 | GO : 0008202 | Steroid metabolic process | 3.17E-08 | 2.50E-05 | 8 | APOA5|APOB|CYP2C19|CYP2C9|CYP3A4|HMGCS2|NR1H4|NR1I2 | |
| 1 | GO : 0006721 | Terpenoid metabolic process | 0.00E + 00 | 1.13E-08 | 9 | ADH4|ADH6|APOB|APOC3|CYP2C18|CYP2C19|CYP2C9|CYP3A4|HMGCS2 | |
| 2 | GO : 0006720 | Isoprenoid metabolic process | 0.00E + 00 | 1.84E-08 | 9 | ADH4|ADH6|APOB|APOC3|CYP2C18|CYP2C19|CYP2C9|CYP3A4|HMGCS2 | |
| 15 | GO : 0001523 | Retinoid metabolic process | 4.89E-08 | 3.59E-05 | 6 | ADH4|ADH6|APOB|APOC3|CYP2C18|CYP3A4 | |
| 16 | GO : 0016101 | Diterpenoid metabolic process | 6.87E-08 | 4.73E-05 | 6 | ADH4|ADH6|APOB|APOC3|CYP2C18|CYP3A4 | |
| 48 | GO : 0034754 | Cellular hormone metabolic process | 3.69E-06 | 8.38E-04 | 5 | ADH4|ADH6|CYP2C18|CYP2C9|CYP3A4 | |
| 24 | GO : 0016098 | Monoterpenoid metabolic process | 1.41E-07 | 6.49E-05 | 3 | CYP2C19|CYP2C9|CYP3A4 | |
| Other | 22 | GO : 0065008 | Regulation of biological quality | 1.32E-07 | 6.49E-05 | 23 | A1CF|ABCG8|ADH4|ADH6|AFM|AGXT|AGXT2|APOA5|APOB|APOC3|CYP2C18|CYP2C9|CYP3A4|CYP4F2|F11|F9|GBA3|HPX|NR1H4|OTC|PLA2G12B|SLC2A2|SLC39A5 |
| 25 | GO : 0015711 | Organic anion transport | 1.88E-07 | 8.30E-05 | 9 | ABCG8|AGXT|APOA5|APOC3|FABP1|NR1H4|PLA2G12B|SLC17A4|SLC2A2 | |
| 40 | GO : 0006820 | Anion transport | 1.42E-06 | 3.84E-04 | 9 | ABCG8|AGXT|APOA5|APOC3|FABP1|NR1H4|PLA2G12B|SLC17A4|SLC2A2 | |
| 32 | GO : 0050892 | Intestinal absorption | 4.46E-07 | 1.54E-04 | 4 | ABCG8|FABP1|MOGAT2|SLC2A2 | |
| 9 | GO : 0044281 | Small-molecule metabolic process | 7.90E-09 | 9.68E-06 | 17 | ADH4|ADH6|AGXT|AGXT2|ALDOB|APOA5|APOB|CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2|HAO1|HMGCS2|MOGAT2|NR1H4|OTC | |
| 12 | GO : 1901615 | Organic hydroxy compound metabolic process | 1.16E-08 | 1.07E-05 | 10 | ADH4|ADH6|APOA5|APOB|CYP3A4|CYP4F2|HAO1|HMGCS2|MOGAT2|NR1H4 | |
| 23 | GO : 0006066 | Alcohol metabolic process | 1.38E-07 | 6.49E-05 | 8 | ADH4|ADH6|APOA5|APOB|CYP3A4|HAO1|HMGCS2|MOGAT2 | |
| 38 | GO : 0046185 | Aldehyde catabolic process | 1.16E-06 | 3.36E-04 | 3 | ADH4|AGXT|AGXT2 | |
| 49 | GO : 0006081 | Cellular aldehyde metabolic process | 3.80E-06 | 8.38E-04 | 4 | ADH4|AGXT|AGXT2|ALDOB | |
| 13 | GO : 0009056 | Catabolic process | 1.28E-08 | 1.09E-05 | 18 | ADH4|AGXT|AGXT2|ALDOB|APOA5|APOB|APOC3|CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2|FABP1|GBA3|HAO1|NR1I2|OTC|PLA2G12B | |
| 45 | GO : 1901575 | Organic substance catabolic process | 3.11E-06 | 7.49E-04 | 14 | ADH4|AGXT|AGXT2|ALDOB|APOA5|APOB|APOC3|CYP3A4|CYP4F2|FABP1|GBA3|HAO1|OTC|PLA2G12B | |
| 19 | GO : 0044248 | Cellular catabolic process | 8.67E-08 | 5.03E-05 | 16 | ADH4|AGXT|AGXT2|APOA5|APOB|APOC3|CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2|FABP1|GBA3|HAO1|NR1I2|OTC | |
| 7 | GO : 0032787 | Monocarboxylic acid metabolic process | 3.70E-09 | 5.83E-06 | 11 | ADH6|AGXT|AGXT2|ALDOB|CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2|HAO1|NR1H4 | |
| 20 | GO : 0019752 | Carboxylic acid metabolic process | 9.66E-08 | 5.32E-05 | 12 | ADH6|AGXT|AGXT2|ALDOB|CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2|HAO1|NR1H4|OTC | |
| 28 | GO : 0043436 | Oxoacid metabolic process | 2.70E-07 | 1.06E-04 | 12 | ADH6|AGXT|AGXT2|ALDOB|CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2|HAO1|NR1H4|OTC | |
| 30 | GO : 0006082 | Organic acid metabolic process | 3.38E-07 | 1.24E-04 | 12 | ADH6|AGXT|AGXT2|ALDOB|CYP2C18|CYP2C19|CYP2C9|CYP3A4|CYP4F2|HAO1|NR1H4|OTC |
Note: The list of genes that are co-expressed with NAT2 (listed in Table 2) were analyzed using GOnet (Pomaznoy et al. 2018) to identify Gene Ontology biological processes (GO terms and IDs) that are enriched by the group. Some GO terms were categorized according to common biological processes they belong to (eg, Xenobiotic Metabolism). Among the co-expressed genes in Table 2, the genes that contribute to each GO term are shown under the column, “Genes.” Only top 50 GO biological processes are shown here.
a
False discovery rate-adjusted p value (or q value).