ST000561 Exploring the link between genotype, phenotype and metabolome for tomato seed quality attributes
List of human metabolic pathways and metabolites (REACTOME)

Pathway name (# of metabolites detected in study)Reactome pathway
ABH2 mediated Reversal of Alkylation Damage (1) REACT_526
ABH3 mediated Reversal of Alkylation Damage (1) REACT_1662
Abnormal metabolism in phenylketonuria (4) REACT_121117
Activation of AMPA receptors (1) REACT_18338
Activation of Ca-permeable Kainate Receptor (1) REACT_21346
Activation of gene expression by SREBF (SREBP) (2) REACT_147904
Activation of G protein gated Potassium channels (1) REACT_75831
Activation of Na-permeable Kainate Receptors (1) REACT_21343
Aflatoxin activation and detoxification (2) REACT_228214
Agmatine biosynthesis (1) REACT_14800
Alpha-oxidation of phytanate (1) REACT_17003
Amino acid synthesis and interconversion (transamination) (5) REACT_238
Amino acid transport across the plasma membrane (16) REACT_13796
Antigen Presentation: Folding, assembly and peptide loading of class I MHC (16) REACT_75795
Antigen processing: Ubiquitination & Proteasome degradation (16) REACT_75842
Astrocytic Glutamate-Glutamine Uptake And Metabolism (2) REACT_13639
Biogenic amines are oxidatively deaminated to aldehydes by MAOA and MAOB (1) REACT_416
Biotin transport and metabolism (1) REACT_11153
BMAL1:CLOCK,NPAS2 activates circadian gene expression (2) REACT_111118
Branched-chain amino acid catabolism (4) REACT_197
Carnitine synthesis (2) REACT_2125
Catecholamine biosynthesis (1) REACT_15551
Circadian Clock (2) REACT_24941
Citric acid cycle (TCA cycle) (4) REACT_1785
Class A/1 (Rhodopsin-like receptors) (2) REACT_14828
Class C/3 (Metabotropic glutamate/pheromone receptors) (4) REACT_18319
Cleavage of the damaged pyrimidine (1) REACT_2156
Cobalamin (Cbl, vitamin B12) transport and metabolism (1) REACT_163862
Collagen biosynthesis and modifying enzymes (1) REACT_121139
Condensation of Prophase Chromosomes (1) REACT_172744
Conjugation of benzoate with glycine (2) REACT_6933
Conjugation of phenylacetate with glutamine (1) REACT_6800
Conjugation of salicylate with glycine (2) REACT_6812
Creatine metabolism (1) REACT_813
CREB phosphorylation through the activation of CaMKII (2) REACT_20642
Cross-presentation of soluble exogenous antigens (endosomes) (16) REACT_111056
Cysteine formation from homocysteine (1) REACT_115589
Cytosolic tRNA aminoacylation (16) REACT_15306
Degradation of cysteine and homocysteine (2) REACT_115654
Degradation of GABA (3) REACT_23964
Digestion of dietary carbohydrate (1) REACT_9472
Digestion of dietary lipid (1) REACT_9518
Endosomal/Vacuolar pathway (16) REACT_111168
eNOS activation (1) REACT_12477
EPHB-mediated forward signaling (2) REACT_228085
ER-Phagosome pathway (16) REACT_111178
Fatty Acids bound to GPR40 (FFAR1) regulate insulin secretion (1) REACT_19193
Fatty acid, triacylglycerol, and ketone body metabolism (1) REACT_22279
Fatty Acyl-CoA Biosynthesis (3) REACT_1319
Free fatty acid receptors (1) REACT_21268
GABA A receptor activation (1) REACT_24987
GABA A (rho) receptor activation (1) REACT_25168
GABA B receptor activation (1) REACT_25031
GABA synthesis (2) REACT_24020
GABA synthesis, release, reuptake and degradation (1) REACT_23947
G alpha (i) signalling events (5) REACT_19231
G alpha (q) signalling events (4) REACT_18283
G alpha (s) signalling events (1) REACT_19327
Gluconeogenesis (4) REACT_1520
Glutamate Neurotransmitter Release Cycle (2) REACT_12591
Glutathione synthesis and recycling (17) REACT_6960
Glycolysis (1) REACT_1383
Glyoxylate metabolism (4) REACT_16925
HDMs demethylate histones (1) REACT_228178
Heme biosynthesis (1) REACT_9465
Histidine catabolism (1) REACT_1249
HS-GAG degradation (1) REACT_120752
Hydrolysis of LPC (1) REACT_120977
Hydrolysis of LPE (2) REACT_120785
Hydroxycarboxylic acid-binding receptors (1) REACT_163785
Inactivation, recovery and regulation of the phototransduction cascade (1) REACT_163919
Inhibition of voltage gated Ca2+ channels via Gbeta/gamma subunits (1) REACT_25004
Inositol transporters (1) REACT_19188
Ligand-gated ion channel transport (3) REACT_25387
Linoleic acid (LA) metabolism (1) REACT_121100
Lysine catabolism (2) REACT_1298
Metabolism of folate and pterines (3) REACT_11167
Metabolism of serotonin (1) REACT_15532
Methionine salvage pathway (1) REACT_75881
Methylation (1) REACT_6946
Mitochondrial iron-sulfur cluster biogenesis (1) REACT_150353
Mitochondrial tRNA aminoacylation (16) REACT_15302
Molybdenum cofactor biosynthesis (2) REACT_25073
Na+/Cl- dependent neurotransmitter transporters (16) REACT_20506
Nicotinamide salvaging (1) REACT_11213
Nicotinate metabolism (2) REACT_11088
Organic anion transporters (2) REACT_19372
Organic cation transport (1) REACT_22357
Orphan transporters (3) REACT_267716
Oxidative Stress Induced Senescence (1) REACT_169436
Oxygen-dependent asparagine hydroxylation of Hypoxia-inducible Factor Alpha (1) REACT_121226
Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha (1) REACT_120916
Passive transport by Aquaporins (1) REACT_23826
Phenylalanine and tyrosine catabolism (4) REACT_1786
Plasmalogen biosynthesis (1) REACT_1407
Platelet degranulation (1) REACT_318
PPARA activates gene expression (2) REACT_116145
Presynaptic function of Kainate receptors (1) REACT_21254
Proline catabolism (2) REACT_1002
Proton-coupled neutral amino acid transporters (3) REACT_19348
Proton/oligonucleotide cotransporters (16) REACT_19328
Purine catabolism (1) REACT_2086
Purine ribonucleoside monophosphate biosynthesis (4) REACT_1776
Purine salvage (1) REACT_1923
Pyrimidine biosynthesis (3) REACT_21376
Pyrimidine catabolism (2) REACT_1023
Ras activation uopn Ca2+ infux through NMDA receptor (2) REACT_20546
Recycling of bile acids and salts (1) REACT_11042
Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha) (2) REACT_19241
Retinoid cycle disease events (1) REACT_160130
Retinoid metabolism and transport (2) REACT_24968
Reuptake of GABA (1) REACT_23910
REV-ERBA represses gene expression (2) REACT_118789
RORA activates circadian gene expression (2) REACT_118659
Serine biosynthesis (2) REACT_115789
Serotonin and melatonin biosynthesis (2) REACT_15439
Serotonin clearance from the synaptic cleft (1) REACT_15391
Serotonin Neurotransmitter Release Cycle (1) REACT_15425
Serotonin receptors (1) REACT_17064
Sodium-coupled sulphate, di- and tri-carboxylate transporters (2) REACT_20646
Sphingolipid de novo biosynthesis (1) REACT_115810
Sulfide oxidation to sulfate (1) REACT_116010
Sulfur amino acid metabolism (3) REACT_115639
Synthesis and interconversion of nucleotide di- and triphosphates (2) REACT_21330
Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol (1) REACT_11041
Synthesis of IP2, IP, and Ins in the cytosol (2) REACT_150352
Synthesis of Leukotrienes (LT) and Eoxins (EX) (2) REACT_150420
Synthesis of PA (1) REACT_120906
Synthesis of PE (1) REACT_120919
Synthesis of PG (1) REACT_121280
Synthesis of PI (1) REACT_121000
Synthesis of PS (2) REACT_120823
Synthesis of UDP-N-acetyl-glucosamine (2) REACT_22394
Synthesis of very long-chain fatty acyl-CoAs (1) REACT_380
Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) (1) REACT_24019
Synthesis, secretion, and inactivation of Glucose-dependent Insulinotropic Polypeptide (GIP) (1) REACT_23824
TET1,2,3 and TDG demethylate DNA (1) REACT_200682
Tetrahydrobiopterin (BH4) synthesis, recycling, salvage and regulation (1) REACT_111176
The canonical retinoid cycle in rods (twilight vision) (2) REACT_160156
The retinoid cycle in cones (daylight vision) (1) REACT_160083
Thyroxine biosynthesis (2) REACT_15292
Transcriptional activation of mitochondrial biogenesis (2) REACT_200608
Transcriptional regulation of white adipocyte differentiation (2) REACT_27161
Transport of fatty acids (2) REACT_23892
Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds (1) REACT_19305
Transport of inorganic cations/anions and amino acids/oligopeptides (4) REACT_19397
Transport of nucleosides and free purine and pyrimidine bases across the plasma membrane (2) REACT_1206
Triglyceride Biosynthesis (1) REACT_1190
Tryptophan catabolism (4) REACT_916
Unblocking of NMDA receptor, glutamate binding and activation (2) REACT_20594
Urea cycle (4) REACT_847
Utilization of Ketone Bodies (1) REACT_59
YAP1- and WWTR1 (TAZ)-stimulated gene expression (2) REACT_118713
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