Table 3.
List of the 41 KEGG metabolism pathways for which at least three identified metabolites were measured. For each pathway, its name, number of up- and downregulated features, raw p-value, and adjusted p-value are reported. Based on the adjusted p-value, 31 of the listed metabolic pathways were significantly altered in the Mecp2−/y cortex.
| Pathway | Number of Features | Number down | Number up | Direction | p-Value | Adjusted p-Value | Group |
|---|---|---|---|---|---|---|---|
| Starch and sucrose metabolism | 3 | 0 | 3 | Up | 1.00 × 10−6 | 1.02 × 10−5 | Carbohydrate metabolism |
| Glyoxylate and dicarboxylate metabolism | 11 | 0 | 8 | Up | 8.00 × 10−6 | 6.97 × 10−5 | |
| Galactose metabolism | 4 | 0 | 4 | Up | 1.20 × 10−5 | 7.86 × 10−5 | |
| Fructose and mannose metabolism | 3 | 0 | 3 | Up | 1.40 × 10−5 | 7.91 × 10−5 | |
| Glycolysis/Gluconeogenesis | 5 | 0 | 5 | Up | 5.40 × 10−5 | 0.000199 | |
| Citrate cycle (TCA cycle) | 7 | 0 | 7 | Up | 9.60 × 10−5 | 0.000301 | |
| Pentose phosphate pathway | 3 | 0 | 3 | Up | 0.000106 | 0.000309 | |
| Butanoate metabolism | 6 | 0 | 6 | Up | 0.000115 | 0.000313 | |
| Ascorbate and aldarate metabolism | 3 | 0 | 3 | Up | 0.00013 | 0.000332 | |
| Pentose and glucuronate interconversions | 5 | 0 | 5 | Up | 0.000211 | 0.000508 | |
| Pyruvate metabolism | 6 | 0 | 6 | Up | 0.000333 | 0.000717 | |
| Propanoate metabolism | 4 | 0 | 3 | Up | 0.000623 | 0.001215 | |
| Oxidative phosphorylation | 5 | 0 | 4 | Up | 0.000295 | 0.000671 | Energy metabolism |
| Sulfur metabolism | 6 | 2 | 4 | Up | 0.025918 | 0.034278 | |
| Biosynthesis of unsaturated fatty acids | 4 | 0 | 3 | Up | 0.001717 | 0.002815 | Lipid metabolism |
| Primary bile acid biosynthesis | 3 | 0 | 2 | Up | 0.00549 | 0.008336 | |
| Glycerophospholipid metabolism | 4 | 2 | 1 | Down | 0.01947 | 0.027526 | |
| Pyrimidine metabolism | 16 | 7 | 3 | Down | 0.116182 | 0.136098 | Nucleotide metabolism |
| Purine metabolism | 20 | 7 | 5 | Up | 0.257673 | 0.270886 | |
| Arginine biosynthesis | 10 | 0 | 8 | Up | 1.00 × 10−6 | 1.02 × 10−5 | Amino acid metabolism |
| Valine, leucine, and isoleucine degradation | 3 | 0 | 3 | Up | 9.00 × 10−6 | 6.97 × 10−5 | |
| Alanine, aspartate, and glutamate metabolism | 12 | 0 | 10 | Up | 1.80 × 10−5 | 8.97 × 10−5 | |
| Valine, leucine, and isoleucine biosynthesis | 4 | 0 | 4 | Up | 2.50 × 10−5 | 0.0001 | |
| Phenylalanine metabolism | 5 | 0 | 5 | Up | 6.20 × 10−5 | 0.00021 | |
| Arginine and proline metabolism | 17 | 3 | 9 | Up | 0.000503 | 0.00103 | |
| Cysteine and methionine metabolism | 13 | 4 | 9 | Up | 0.001386 | 0.00247 | |
| Phenylalanine, tyrosine, and tryptophan biosynthesis | 3 | 0 | 3 | Up | 0.00163 | 0.002784 | |
| Glycine, serine, and threonine metabolism | 13 | 4 | 7 | Up | 0.00343 | 0.005408 | |
| Lysine degradation | 7 | 5 | 1 | Down | 0.07318 | 0.093761 | |
| Histidine metabolism | 9 | 2 | 3 | Up | 0.143679 | 0.163634 | |
| Tyrosine metabolism | 7 | 2 | 4 | Up | 0.214087 | 0.230988 | |
| Tryptophan metabolism | 4 | 1 | 2 | Up | 0.377303 | 0.386735 | |
| D-Glutamine and D-glutamate metabolism | 3 | 0 | 3 | Up | 2.00 × 10−6 | 2.05 × 10−5 | Metabolism of other amino acids |
| Taurine and hypotaurine metabolism | 7 | 1 | 5 | Up | 0.001137 | 0.002118 | |
| beta-Alanine metabolism | 9 | 4 | 2 | Down | 0.113484 | 0.136098 | |
| Glutathione metabolism | 9 | 4 | 4 | Up | 0.184715 | 0.204683 | |
| Porphyrin and chlorophyll metabolism | 3 | 0 | 2 | Up | 2.30 × 10−5 | 0.0001 | Metabolism of cofactors and vitamins |
| Nicotinate and nicotinamide metabolism | 8 | 1 | 5 | Up | 0.00984 | 0.014408 | |
| Thiamine metabolism | 8 | 3 | 4 | Up | 0.022741 | 0.031079 | |
| Vitamin B6 metabolism | 3 | 0 | 1 | Up | 0.110406 | 0.136098 | |
| Pantothenate and CoA biosynthesis | 8 | 3 | 3 | Up | 0.505619 | 0.505619 |