MetaboLights MTBLS1 → KEGG pathway ORA (baseline)
Input: MetaboLights MTBLS1, 64 metabolites (Salek et al.; urine NMR, T2D vs control)
Generated by kegg_baseline.py — KEGG-pathway
over-representation (the MetaboAnalyst/KEGG-style incumbent), same one-sided
hypergeometric + BH-FDR as the GO enrichment, on the same study. Live + cached.
- Foreground: 39 study metabolites mapped to KEGG compounds in pathways (55 mapped total; 7 unmapped).
- Background universe: 6653 KEGG compounds occurring in reference pathways.
Top enriched KEGG pathways
| KEGG pathway | k/n | K/N | Fold | FDR |
|---|---|---|---|---|
| map01200 Carbon metabolism | 11/39 | 115/6653 | 16.3× | 3.3e-09 |
| map00720 Other carbon fixation pathways | 8/39 | 44/6653 | 31.0× | 5.7e-09 |
| map00250 Alanine, aspartate and glutamate metabolism | 7/39 | 28/6653 | 42.6× | 5.7e-09 |
| map00620 Pyruvate metabolism | 7/39 | 32/6653 | 37.3× | 1.2e-08 |
| map01065 Biosynthesis of alkaloids derived from histidine and purine | 7/39 | 35/6653 | 34.1× | 1.9e-08 |
| map00020 Citrate cycle (TCA cycle) | 6/39 | 20/6653 | 51.2× | 1.9e-08 |
| map00630 Glyoxylate and dicarboxylate metabolism | 8/39 | 67/6653 | 20.4× | 5.5e-08 |
| map04922 Glucagon signaling pathway | 6/39 | 26/6653 | 39.4× | 8.4e-08 |
| map00650 Butanoate metabolism | 7/39 | 47/6653 | 25.4× | 9.3e-08 |
| map00760 Nicotinate and nicotinamide metabolism | 7/39 | 55/6653 | 21.7× | 2.6e-07 |
| map05230 Central carbon metabolism in cancer | 6/39 | 37/6653 | 27.7× | 5.9e-07 |
| map01100 Metabolic pathways | 35/39 | 3253/6653 | 1.8× | 7.5e-07 |
| map01064 Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid | 7/39 | 67/6653 | 17.8× | 8.2e-07 |
| map01066 Biosynthesis of alkaloids derived from terpenoid and polyketide | 6/39 | 48/6653 | 21.3× | 2.3e-06 |
| map02020 Two-component system | 6/39 | 56/6653 | 18.3× | 5.6e-06 |
| map01070 Biosynthesis of plant hormones | 6/39 | 68/6653 | 15.1× | 1.7e-05 |
| map00640 Propanoate metabolism | 5/39 | 42/6653 | 20.3× | 2.7e-05 |
| map04974 Protein digestion and absorption | 5/39 | 47/6653 | 18.1× | 4.4e-05 |
| map00680 Methane metabolism | 6/39 | 88/6653 | 11.6× | 6.4e-05 |
| map01060 Biosynthesis of plant secondary metabolites | 7/39 | 141/6653 | 8.5× | 8.4e-05 |
| map01062 Biosynthesis of terpenoids and steroids | 6/39 | 98/6653 | 10.4× | 1.1e-04 |
| map00010 Glycolysis / Gluconeogenesis | 4/39 | 31/6653 | 22.0× | 1.5e-04 |
| map01061 Biosynthesis of phenylpropanoids | 6/39 | 106/6653 | 9.7× | 1.5e-04 |
| map00350 Tyrosine metabolism | 5/39 | 79/6653 | 10.8× | 4.1e-04 |
| map01230 Biosynthesis of amino acids | 6/39 | 128/6653 | 8.0× | 4.1e-04 |
| map01063 Biosynthesis of alkaloids derived from shikimate pathway | 6/39 | 143/6653 | 7.2× | 7.3e-04 |
| map01210 2-Oxocarboxylic acid metabolism | 6/39 | 144/6653 | 7.1× | 7.3e-04 |
| map00260 Glycine, serine and threonine metabolism | 4/39 | 50/6653 | 13.6× | 8.0e-04 |
| map00220 Arginine biosynthesis | 3/39 | 24/6653 | 21.3× | 1.4e-03 |
| map00430 Taurine and hypotaurine metabolism | 3/39 | 24/6653 | 21.3× | 1.4e-03 |
Why compare
KEGG/SMPDB ORA reports pathway membership — broad buckets like
"amino acid metabolism". The GO enrichment reports the
specific molecular activities (transaminase, amino-acid oxidase, racemase)
and uses the ontology's is_a/part_of closure to aggregate them — a
complementary, finer-grained readout on the identical metabolite set and test.
Note. This KEGG baseline is kept as an illustrative cross-check only
(KEGG is the recognizable incumbent). KEGG data carries redistribution
restrictions, so the going-forward / demo pathway baseline is an openly
redistributable source — Reactome / SMPDB — and KEGG is not expanded to
the other studies. Only derived enrichment statistics are recorded here.