ST001937 Comprehensive plasma metabolomics and lipidomics based management of benign and malignant solitary pulmonary nodules
List of human metabolic pathways and metabolites (REACTOME)

Pathway name (# of metabolites detected in study)Reactome pathway
5-Phosphoribose 1-diphosphate biosynthesis (1) REACT_850
Abacavir metabolism (1) REACT_121388
ABH2 mediated Reversal of Alkylation Damage (2) REACT_526
ABH3 mediated Reversal of Alkylation Damage (2) REACT_1662
Abnormal conversion of 2-oxoglutarate to 2-hydroxyglutarate (1) REACT_160183
Abnormal metabolism in phenylketonuria (5) REACT_121117
Acetylation (1) REACT_6732
Acetylcholine Neurotransmitter Release Cycle (1) REACT_15309
Acetylcholine regulates insulin secretion (1) REACT_18405
Activation of AMPA receptors (1) REACT_18338
Activation of Ca-permeable Kainate Receptor (1) REACT_21346
Activation of gene expression by SREBF (SREBP) (1) REACT_147904
Activation of Na-permeable Kainate Receptors (1) REACT_21343
Adenylate cyclase activating pathway (2) REACT_15312
Aflatoxin activation and detoxification (3) REACT_228214
Agmatine biosynthesis (1) REACT_14800
alpha-linolenic acid (ALA) metabolism (1) REACT_121147
Alpha-oxidation of phytanate (3) REACT_17003
Amino acid synthesis and interconversion (transamination) (11) REACT_238
Amino acid transport across the plasma membrane (17) REACT_13796
Androgen biosynthesis (1) REACT_11059
Antigen Presentation: Folding, assembly and peptide loading of class I MHC (14) REACT_75795
Antigen processing: Ubiquitination & Proteasome degradation (15) 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 (2) REACT_11153
BMAL1:CLOCK,NPAS2 activates circadian gene expression (1) REACT_111118
Branched-chain amino acid catabolism (4) REACT_197
Cam-PDE 1 activation (1) REACT_15408
Carnitine synthesis (3) REACT_2125
Catecholamine biosynthesis (2) REACT_15551
Cholesterol biosynthesis (1) REACT_9405
Circadian Clock (1) REACT_24941
Citric acid cycle (TCA cycle) (5) REACT_1785
Class A/1 (Rhodopsin-like receptors) (6) REACT_14828
Class C/3 (Metabotropic glutamate/pheromone receptors) (5) REACT_18319
Cleavage of the damaged purine (1) REACT_1729
Cleavage of the damaged pyrimidine (1) REACT_2156
Cobalamin (Cbl, vitamin B12) transport and metabolism (1) REACT_163862
Coenzyme A biosynthesis (1) REACT_11218
Collagen biosynthesis and modifying enzymes (3) REACT_121139
Condensation of Prophase Chromosomes (2) REACT_172744
Conjugation of benzoate with glycine (4) REACT_6933
Conjugation of phenylacetate with glutamine (2) REACT_6800
Conjugation of salicylate with glycine (4) REACT_6812
Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase (1) REACT_6867
Creatine metabolism (4) REACT_813
CREB phosphorylation through the activation of Adenylate Cyclase (2) REACT_20625
CREB phosphorylation through the activation of CaMKII (2) REACT_20642
Cross-presentation of soluble exogenous antigens (endosomes) (14) REACT_111056
Cysteine formation from homocysteine (3) REACT_115589
Cytosolic tRNA aminoacylation (15) REACT_15306
DARPP-32 events (1) REACT_15334
Degradation of cysteine and homocysteine (3) REACT_115654
Degradation of GABA (5) REACT_23964
Detoxification of Reactive Oxygen Species (1) REACT_172715
Digestion of dietary lipid (2) REACT_9518
DNA replication initiation (1) REACT_2244
Downstream TCR signaling (1) REACT_12555
Endogenous sterols (2) REACT_13812
Endosomal/Vacuolar pathway (14) REACT_111168
eNOS activation (1) REACT_12477
EPHB-mediated forward signaling (2) REACT_228085
ER-Phagosome pathway (14) REACT_111178
ER Quality Control Compartment (ERQC) (1) REACT_25091
Ethanol oxidation (1) REACT_34
Fatty acids (1) REACT_13814
Fatty Acids bound to GPR40 (FFAR1) regulate insulin secretion (3) REACT_19193
Fatty Acyl-CoA Biosynthesis (3) REACT_1319
FCERI mediated NF-kB activation (1) REACT_163994
Formation of the active cofactor, UDP-glucuronate (1) REACT_6737
Free fatty acid receptors (5) REACT_21268
GABA synthesis (2) REACT_24020
G alpha (i) signalling events (12) REACT_19231
G alpha (q) signalling events (8) REACT_18283
G alpha (s) signalling events (4) REACT_19327
G alpha (z) signalling events (2) REACT_19333
Glucagon-like Peptide-1 (GLP1) regulates insulin secretion (2) REACT_18274
Glucocorticoid biosynthesis (1) REACT_11036
Gluconeogenesis (7) REACT_1520
Glutamate Neurotransmitter Release Cycle (2) REACT_12591
Glutathione conjugation (1) REACT_6926
Glutathione synthesis and recycling (16) REACT_6960
Glycogen synthesis (1) REACT_169208
Glycolysis (3) REACT_1383
Glycosphingolipid metabolism (1) REACT_116105
Glyoxylate metabolism (5) REACT_16925
HCN channels (1) REACT_75862
HDMs demethylate histones (2) REACT_228178
Hedgehog 'off' state (2) REACT_267634
Heme biosynthesis (2) REACT_9465
Highly calcium permeable nicotinic acetylcholine receptors (1) REACT_22352
Highly calcium permeable postsynaptic nicotinic acetylcholine receptors (1) REACT_22303
Highly sodium permeable acetylcholine nicotinic receptors (1) REACT_22223
Histidine catabolism (2) REACT_1249
HIV Transcription Initiation (1) REACT_6332
Hydroxycarboxylic acid-binding receptors (3) REACT_163785
Hypusine synthesis from eIF5A-lysine (1) REACT_12469
Inactivation, recovery and regulation of the phototransduction cascade (2) REACT_163919
Inositol transporters (1) REACT_19188
Interconversion of 2-oxoglutarate and 2-hydroxyglutarate (2) REACT_25367
Interconversion of polyamines (1) REACT_14805
ISG15 antiviral mechanism (1) REACT_115831
Ligand-gated ion channel transport (1) REACT_25387
Linoleic acid (LA) metabolism (1) REACT_121100
Lysine catabolism (3) REACT_1298
Metabolism of folate and pterines (3) REACT_11167
Metabolism of nucleotides (2) REACT_1698
Metabolism of polyamines (2) REACT_14820
Methionine salvage pathway (2) REACT_75881
Methylation (2) REACT_6946
Mineralocorticoid biosynthesis (1) REACT_11047
Minus-strand DNA synthesis (2) REACT_9055
Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta) (2) REACT_228019
Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha) (2) REACT_228145
Mitochondrial iron-sulfur cluster biogenesis (2) REACT_150353
Mitochondrial tRNA aminoacylation (15) REACT_15302
Molybdenum cofactor biosynthesis (4) REACT_25073
Muscarinic acetylcholine receptors (1) REACT_16943
Na+/Cl- dependent neurotransmitter transporters (15) REACT_20506
Na+-dependent glucose transporters (1) REACT_19165
NADPH regeneration (1) REACT_16904
Neurotransmitter Clearance In The Synaptic Cleft (1) REACT_13583
Nicotinamide salvaging (2) REACT_11213
Nicotinate metabolism (3) REACT_11088
Nitric oxide stimulates guanylate cyclase (1) REACT_23862
Organic anion transport (2) REACT_22310
Organic anion transporters (4) REACT_19372
Organic cation transport (1) REACT_22357
Orphan transporters (2) REACT_267716
Oxidative Stress Induced Senescence (2) REACT_169436
Oxygen-dependent asparagine hydroxylation of Hypoxia-inducible Factor Alpha (2) REACT_121226
Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha (2) REACT_120916
PAOs oxidise polyamines to amines (1) REACT_505
Passive transport by Aquaporins (1) REACT_23826
PD-1 signaling (1) REACT_19324
PDE3B signalling (1) REACT_1451
Phagosomal maturation (early endosomal stage) (1) REACT_121256
Phenylalanine and tyrosine catabolism (8) REACT_1786
Phosphate bond hydrolysis by NUDT proteins (2) REACT_150237
PKA activation (2) REACT_15530
PKA activation in glucagon signalling (2) REACT_1946
Plasmalogen biosynthesis (2) REACT_1407
Platelet degranulation (1) REACT_318
PPARA activates gene expression (1) REACT_116145
Presynaptic function of Kainate receptors (1) REACT_21254
Processive synthesis on the C-strand of the telomere (1) REACT_8027
Progressive trimming of alpha-1,2-linked mannose residues from Man9/8/7GlcNAc2 to produce Man5GlcNAc2 (1) REACT_25396
Proline catabolism (2) REACT_1002
Prostanoid ligand receptors (1) REACT_18425
Proton-coupled monocarboxylate transport (2) REACT_20515
Proton-coupled neutral amino acid transporters (3) REACT_19348
Proton/oligonucleotide cotransporters (14) REACT_19328
Purine catabolism (7) REACT_2086
Purine ribonucleoside monophosphate biosynthesis (5) REACT_1776
Purine salvage (6) REACT_1923
Pyrimidine biosynthesis (3) REACT_21376
Pyrimidine catabolism (7) REACT_1023
Pyrimidine salvage reactions (2) REACT_655
Pyruvate metabolism (2) REACT_2071
Rap1 signalling (2) REACT_23898
Ras activation uopn Ca2+ infux through NMDA receptor (2) REACT_20546
Reactions specific to the complex N-glycan synthesis pathway (1) REACT_25302
Recycling of bile acids and salts (3) REACT_11042
Regulation by TREX1 (1) REACT_163652
Regulation of insulin secretion (1) REACT_18325
Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha) (1) REACT_19241
Regulation of ornithine decarboxylase (ODC) (1) REACT_13565
Regulation of pyruvate dehydrogenase (PDH) complex (1) REACT_12528
Removal of DNA patch containing abasic residue (1) REACT_2192
Resolution of AP sites via the single-nucleotide replacement pathway (1) REACT_933
Retinoid cycle disease events (1) REACT_160130
Retinoid metabolism and transport (1) REACT_24968
Reuptake of GABA (2) REACT_23910
REV-ERBA represses gene expression (1) REACT_118789
RNA Polymerase II HIV Promoter Escape (1) REACT_6253
RNA Polymerase II Promoter Escape (1) REACT_2089
RNA Polymerase II Transcription Initiation (1) REACT_1851
RORA activates circadian gene expression (1) REACT_118659
Scavenging by Class A Receptors (3) REACT_163699
Serine biosynthesis (5) REACT_115789
Serotonin and melatonin biosynthesis (4) REACT_15439
Sialic acid metabolism (2) REACT_200874
Sodium-coupled sulphate, di- and tri-carboxylate transporters (1) REACT_20646
Sperm Motility And Taxes (1) REACT_163875
Sphingolipid de novo biosynthesis (4) REACT_115810
Stimuli-sensing channels (1) REACT_160189
STING mediated induction of host immune responses (1) REACT_147841
Sulfide oxidation to sulfate (2) REACT_116010
Sulfur amino acid metabolism (4) REACT_115639
SUMO is conjugated to E1 (UBA2:SAE1) (1) REACT_163812
Synthesis and interconversion of nucleotide di- and triphosphates (5) REACT_21330
Synthesis of 12-eicosatetraenoic acid derivatives (1) REACT_150201
Synthesis of 15-eicosatetraenoic acid derivatives (1) REACT_150422
Synthesis of 5-eicosatetraenoic acids (1) REACT_150209
Synthesis of bile acids and bile salts via 24-hydroxycholesterol (1) REACT_11053
Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol (3) REACT_11041
Synthesis of Dolichyl-phosphate (1) REACT_22230
Synthesis of GDP-mannose (1) REACT_22423
Synthesis of IP2, IP, and Ins in the cytosol (2) REACT_150352
Synthesis of Leukotrienes (LT) and Eoxins (EX) (3) REACT_150420
Synthesis of PC (2) REACT_121238
Synthesis of PE (2) REACT_120919
Synthesis of PG (1) REACT_121280
Synthesis of PI (2) REACT_121000
Synthesis of Prostaglandins (PG) and Thromboxanes (TX) (3) REACT_150149
Synthesis of PS (1) REACT_120823
Synthesis of UDP-N-acetyl-glucosamine (3) REACT_22394
Synthesis of very long-chain fatty acyl-CoAs (2) REACT_380
Synthesis, secretion, and deacylation of Ghrelin (2) REACT_19189
Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) (6) REACT_24019
Synthesis, secretion, and inactivation of Glucose-dependent Insulinotropic Polypeptide (GIP) (3) REACT_23824
Telomere C-strand synthesis initiation (1) REACT_7993
Telomere Extension By Telomerase (1) REACT_7974
TET1,2,3 and TDG demethylate DNA (3) REACT_200682
Tetrahydrobiopterin (BH4) synthesis, recycling, salvage and regulation (2) REACT_111176
The canonical retinoid cycle in rods (twilight vision) (1) REACT_160156
The retinoid cycle in cones (daylight vision) (1) REACT_160083
Thyroxine biosynthesis (2) REACT_15292
Transcriptional activation of mitochondrial biogenesis (1) REACT_200608
Transcriptional regulation of white adipocyte differentiation (1) REACT_27161
Transport and synthesis of PAPS (1) REACT_6840
Transport of fatty acids (4) 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 (2) REACT_19397
Transport of nucleosides and free purine and pyrimidine bases across the plasma membrane (5) REACT_1206
Transport of organic anions (2) REACT_23988
Tryptophan catabolism (6) REACT_916
Ubiquinol biosynthesis (1) REACT_160111
Unblocking of NMDA receptor, glutamate binding and activation (2) REACT_20594
Uptake and function of anthrax toxins (2) REACT_228255
Urea cycle (4) REACT_847
Utilization of Ketone Bodies (1) REACT_59
Vasopressin regulates renal water homeostasis via Aquaporins (2) REACT_24023
VEGFR2 mediated cell proliferation (1) REACT_228024
Vitamin B2 (riboflavin) metabolism (1) REACT_11070
Vitamin C (ascorbate) metabolism (2) REACT_11202
Vitamins B6 activation to pyridoxal phosphate (1) REACT_25012
YAP1- and WWTR1 (TAZ)-stimulated gene expression (1) REACT_118713
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