TABLE 1.
Superpathway members meeting enrichment set analysis criteria
| Superpathway | Pathway name | Pathway code |
|---|---|---|
| Amine degradation | 4-Aminobutanoate degradation V | PWY-5022 |
| Allantoin degradation to glyoxylate III | PWY-5705 | |
| GABA shunt | GLUDEG-I-PWY | |
| Superpathway of N-acetylglucosamine, N-acetylmannosamine, and N-acetylneuraminate degradation | GLCMANNANAUT-PWY | |
| Superpathway of ornithine degradation | ORNDEG-PWY | |
| Cofactor biosynthesis | 2-Carboxy-1,4-naphthoquinol biosynthesis | PWY-5837 |
| Molybdenum cofactor biosynthesis | PWY-6823 | |
| NAD de novo biosynthesis I (from aspartate) | PYRIDNUCSYN-PWY | |
| NAD salvage pathway I (PNC VI cycle) | PYRIDNUCSAL-PWY | |
| NAD salvage pathway III (to nicotinamide riboside) | NAD-BIOSYNTHESIS-II | |
| NAD/NADH phosphorylation and dephosphorylation | PWY-5083 | |
| NAD/NADP-NADH/NADPH mitochondrial interconversion (yeast) | PWY-7269 | |
| Polyisoprenoid biosynthesis (Escherichia coli) | POLYISOPRENSYN-PWY | |
| Pyridoxal 5′-phosphate biosynthesis I | PYRIDOXSYN-PWY | |
| Pyridoxal 5′-phosphate salvage II (plants) | PWY-7204 | |
| Superpathway of demethylmenaquinol-9 biosynthesis | PWY-5862 | |
| Superpathway of menaquinol-10 biosynthesis | PWY-5896 | |
| Superpathway of menaquinol-11 biosynthesis | PWY-5897 | |
| Superpathway of menaquinol-12 biosynthesis | PWY-5898 | |
| Superpathway of menaquinol-13 biosynthesis | PWY-5899 | |
| Superpathway of menaquinol-6 biosynthesis I | PWY-5850 | |
| Superpathway of menaquinol-7 biosynthesis | PWY-5840 | |
| Superpathway of menaquinol-8 biosynthesis I | PWY-5838 | |
| Superpathway of menaquinol-9 biosynthesis | PWY-5845 | |
| Superpathway of phylloquinol biosynthesis | PWY-5863 | |
| Superpathway of tetrahydrofolate biosynthesis | PWY-6612 | |
| Superpathway of tetrahydrofolate biosynthesis and salvage | FOLSYN-PWY | |
| Superpathway of thiamine diphosphate biosynthesis I | THISYN-PWY | |
| Superpathway of thiamine diphosphate biosynthesis II | PWY-6895 | |
| Superpathway of ubiquinol-8 biosynthesis (prokaryotic) | UBISYN-PWY | |
| Tetrapyrrole biosynthesis I (from glutamate) | PWY-5188 | |
| Tetrapyrrole biosynthesis II (from glycine) | PWY-5189 | |
| Ubiquinol-10 biosynthesis (prokaryotic) | PWY-5857 | |
| Ubiquinol-7 biosynthesis (prokaryotic) | PWY-5855 | |
| Ubiquinol-8 biosynthesis (prokaryotic) | PWY-6708 | |
| Ubiquinol-9 biosynthesis (prokaryotic) | PWY-5856 | |
| Pantothenate and coenzyme A biosynthesis III | PWY-4242 | |
| 1,4-Dihydroxy-2-naphthoate biosynthesis II (plants) | PWY-5791 | |
| Metabolic regulators | Mannosylglycerate biosynthesis I | PWY-5656 |
| ppGpp biosynthesis | PPGPPMET-PWY | |
| TCA variants | Superpathway of glyoxylate bypass and TCA | TCA-GLYOX-BYPASS |
| TCA cycle I (prokaryotic) | TCA | |
| TCA cycle IV (2-oxoglutarate decarboxylase) | P105-PWY | |
| TCA cycle V (2-oxoglutarate:ferredoxin oxidoreductase) | PWY-6969 | |
| TCA cycle VII (acetate producers) | PWY-7254 | |
| TCA cycle VIII (Helicobacter) | REDCITCYC |