ST002328 Metabolome and transcriptome analysis of oral mucosa of HIV+ patients reveal a role for polyamine metabolic pathway in T cell dysfunction
List of human metabolic pathways and metabolites (REACTOME)

Pathway name (# of metabolites detected in study)Reactome pathway
Abacavir metabolism (2) 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
Activation of AMPA receptors (1) REACT_18338
Activation of Ca-permeable Kainate Receptor (1) REACT_21346
Activation of gene expression by SREBF (SREBP) (3) REACT_147904
Activation of Na-permeable Kainate Receptors (1) REACT_21343
Activation of the phototransduction cascade (1) REACT_163932
Acyl chain remodeling of DAG and TAG (1) REACT_121122
Adenosine P1 receptors (1) REACT_18288
Adenylate cyclase activating pathway (1) REACT_15312
Aflatoxin activation and detoxification (1) REACT_228214
Agmatine biosynthesis (1) REACT_14800
alpha-linolenic acid (ALA) metabolism (2) REACT_121147
Alpha-oxidation of phytanate (3) REACT_17003
Amino acid synthesis and interconversion (transamination) (8) REACT_238
Amino acid transport across the plasma membrane (14) REACT_13796
Antigen Presentation: Folding, assembly and peptide loading of class I MHC (13) REACT_75795
Antigen processing: Ubiquitination & Proteasome degradation (14) REACT_75842
Arachidonate production from DAG (2) REACT_19308
Arachidonic acid metabolism (1) REACT_147851
Aromatic amines can be N-hydroxylated or N-dealkylated by CYP1A2 (1) REACT_13721
Astrocytic Glutamate-Glutamine Uptake And Metabolism (1) REACT_13639
Biogenic amines are oxidatively deaminated to aldehydes by MAOA and MAOB (1) REACT_416
Biosynthesis of the N-glycan precursor (dolichol lipid-linked oligosaccharide, LLO) and transfer to a nascent protein (1) REACT_22433
Biotin transport and metabolism (3) REACT_11153
BMAL1:CLOCK,NPAS2 activates circadian gene expression (3) REACT_111118
Branched-chain amino acid catabolism (4) REACT_197
Ca2+ pathway (1) REACT_172761
Carnitine synthesis (3) REACT_2125
Catecholamine biosynthesis (2) REACT_15551
cGMP effects (1) REACT_23767
Cholesterol biosynthesis (2) REACT_9405
Circadian Clock (3) REACT_24941
Citric acid cycle (TCA cycle) (6) REACT_1785
Class A/1 (Rhodopsin-like receptors) (4) REACT_14828
Class C/3 (Metabotropic glutamate/pheromone receptors) (8) REACT_18319
Class II GLUTs (1) REACT_19281
Cleavage of the damaged purine (1) REACT_1729
Cleavage of the damaged pyrimidine (3) REACT_2156
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 (3) REACT_6933
Conjugation of phenylacetate with glutamine (1) REACT_6800
Conjugation of salicylate with glycine (2) REACT_6812
Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase (1) REACT_6867
COX reactions (1) REACT_1396
Creatine metabolism (3) REACT_813
CREB phosphorylation through the activation of Adenylate Cyclase (1) REACT_20625
CREB phosphorylation through the activation of CaMKII (1) REACT_20642
Cross-presentation of soluble exogenous antigens (endosomes) (13) REACT_111056
Cysteine formation from homocysteine (2) REACT_115589
Cytosolic sulfonation of small molecules (2) REACT_6913
Cytosolic tRNA aminoacylation (14) REACT_15306
Defective HLCS causes multiple carboxylase deficiency (1) REACT_169312
Degradation of cysteine and homocysteine (3) REACT_115654
Degradation of GABA (3) REACT_23964
Digestion of dietary carbohydrate (1) REACT_9472
Digestion of dietary lipid (3) REACT_9518
Downstream TCR signaling (1) REACT_12555
Endosomal/Vacuolar pathway (13) REACT_111168
eNOS activation (3) REACT_12477
EPHB-mediated forward signaling (1) REACT_228085
ER-Phagosome pathway (13) REACT_111178
Ethanol oxidation (1) REACT_34
Fatty acids (3) REACT_13814
Fatty Acids bound to GPR40 (FFAR1) regulate insulin secretion (3) REACT_19193
Fatty acid, triacylglycerol, and ketone body metabolism (1) REACT_22279
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 (7) REACT_21268
GABA synthesis (1) REACT_24020
G alpha (i) signalling events (12) REACT_19231
G alpha (q) signalling events (9) REACT_18283
G alpha (s) signalling events (4) REACT_19327
G alpha (z) signalling events (1) REACT_19333
Glucagon-like Peptide-1 (GLP1) regulates insulin secretion (1) REACT_18274
Gluconeogenesis (7) REACT_1520
Glutamate Neurotransmitter Release Cycle (1) REACT_12591
Glutathione synthesis and recycling (14) REACT_6960
Glycogen synthesis (2) REACT_169208
Glycolysis (2) REACT_1383
Glycosphingolipid metabolism (1) REACT_116105
Glyoxylate metabolism (3) REACT_16925
HDMs demethylate histones (2) REACT_228178
Hedgehog 'off' state (1) REACT_267634
Heme biosynthesis (2) REACT_9465
Histamine receptors (1) REACT_16903
Histidine catabolism (4) REACT_1249
HIV Transcription Initiation (1) REACT_6332
Hormone-sensitive lipase (HSL)-mediated triacylglycerol hydrolysis (1) REACT_494
HS-GAG biosynthesis (1) REACT_121248
HS-GAG degradation (1) REACT_120752
Hydrolysis of LPC (1) REACT_120977
Hydrolysis of LPE (1) REACT_120785
Hydroxycarboxylic acid-binding receptors (3) REACT_163785
Hypusine synthesis from eIF5A-lysine (1) REACT_12469
Import of palmitoyl-CoA into the mitochondrial matrix (1) REACT_11082
Inactivation, recovery and regulation of the phototransduction cascade (1) REACT_163919
Insulin effects increased synthesis of Xylulose-5-Phosphate (1) REACT_939
Integration of energy metabolism (1) REACT_1505
Interconversion of 2-oxoglutarate and 2-hydroxyglutarate (1) REACT_25367
Interconversion of polyamines (2) REACT_14805
Iron uptake and transport (1) REACT_25060
ISG15 antiviral mechanism (1) REACT_115831
Keratan sulfate biosynthesis (1) REACT_121120
Linoleic acid (LA) metabolism (1) REACT_121100
Lysine catabolism (4) REACT_1298
Metabolism of folate and pterines (2) REACT_11167
Metabolism of nucleotides (1) REACT_1698
Metabolism of polyamines (3) REACT_14820
Metabolism of serotonin (1) REACT_15532
Methionine salvage pathway (1) REACT_75881
Methylation (2) REACT_6946
Minus-strand DNA synthesis (1) REACT_9055
Miscellaneous substrates (3) REACT_13425
Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta) (1) REACT_228019
Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha) (1) REACT_228145
Mitochondrial iron-sulfur cluster biogenesis (1) REACT_150353
Mitochondrial tRNA aminoacylation (14) REACT_15302
Molybdenum cofactor biosynthesis (2) REACT_25073
mRNA Capping (1) REACT_1470
mRNA decay by 3' to 5' exoribonuclease (2) REACT_20619
mRNA decay by 5' to 3' exoribonuclease (2) REACT_20518
Na+/Cl- dependent neurotransmitter transporters (13) REACT_20506
NADPH regeneration (1) REACT_16904
NGF-independant TRKA activation (1) REACT_11046
Nicotinamide salvaging (2) REACT_11213
Nicotinate metabolism (2) REACT_11088
Nitric oxide stimulates guanylate cyclase (3) REACT_23862
Organic anion transport (5) REACT_22310
Organic anion transporters (4) REACT_19372
Organic cation transport (3) REACT_22357
Orphan transporters (5) 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 (2) REACT_505
Passive transport by Aquaporins (1) REACT_23826
PD-1 signaling (1) REACT_19324
Pentose phosphate pathway (hexose monophosphate shunt) (1) REACT_1859
Phagosomal maturation (early endosomal stage) (2) REACT_121256
Phenylalanine and tyrosine catabolism (6) REACT_1786
Phosphate bond hydrolysis by NUDT proteins (1) REACT_150237
phospho-PLA2 pathway (1) REACT_15466
PKA activation (1) REACT_15530
PKA activation in glucagon signalling (1) REACT_1946
Plasmalogen biosynthesis (2) REACT_1407
Platelet degranulation (1) REACT_318
PPARA activates gene expression (3) REACT_116145
Presynaptic function of Kainate receptors (1) REACT_21254
Proline catabolism (2) REACT_1002
Prostanoid ligand receptors (1) REACT_18425
Proton-coupled monocarboxylate transport (2) REACT_20515
Proton-coupled neutral amino acid transporters (2) REACT_19348
Proton/oligonucleotide cotransporters (13) REACT_19328
Purine catabolism (9) REACT_2086
Purine ribonucleoside monophosphate biosynthesis (4) REACT_1776
Purine salvage (9) REACT_1923
Pyrimidine biosynthesis (5) REACT_21376
Pyrimidine catabolism (10) REACT_1023
Pyrimidine salvage reactions (6) REACT_655
Pyruvate metabolism (2) REACT_2071
Rap1 signalling (1) REACT_23898
Ras activation uopn Ca2+ infux through NMDA receptor (1) REACT_20546
Recycling of bile acids and salts (3) REACT_11042
Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha) (3) REACT_19241
Regulation of pyruvate dehydrogenase (PDH) complex (2) REACT_12528
Removal of DNA patch containing abasic residue (1) REACT_2192
Removal of the Flap Intermediate (2) REACT_70
Removal of the Flap Intermediate from the C-strand (2) REACT_7999
Resolution of AP sites via the single-nucleotide replacement pathway (1) REACT_933
Retinoid cycle disease events (1) REACT_160130
Retinoid metabolism and transport (2) REACT_24968
REV-ERBA represses gene expression (3) 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
Role of phospholipids in phagocytosis (1) REACT_160158
RORA activates circadian gene expression (3) REACT_118659
Scavenging by Class A Receptors (2) REACT_163699
Serine biosynthesis (3) REACT_115789
Serotonin and melatonin biosynthesis (1) REACT_15439
Sialic acid metabolism (2) REACT_200874
Sodium-coupled sulphate, di- and tri-carboxylate transporters (2) REACT_20646
Sphingolipid de novo biosynthesis (1) REACT_115810
Stimuli-sensing channels (2) REACT_160189
STING mediated induction of host immune responses (1) REACT_147841
Sulfide oxidation to sulfate (1) 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 (3) REACT_21330
Synthesis of 12-eicosatetraenoic acid derivatives (1) REACT_150201
Synthesis of 15-eicosatetraenoic acid derivatives (1) REACT_150422
Synthesis of (16-20)-hydroxyeicosatetraenoic acids (HETE) (1) REACT_150134
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 epoxy (EET) and dihydroxyeicosatrienoic acids (DHET) (1) REACT_150417
Synthesis of GDP-mannose (1) REACT_22423
Synthesis of Hepoxilins (HX) and Trioxilins (TrX) (1) REACT_150292
Synthesis of IP2, IP, and Ins in the cytosol (1) REACT_150352
Synthesis of Leukotrienes (LT) and Eoxins (EX) (2) REACT_150420
Synthesis of PA (2) REACT_120906
Synthesis of PC (1) REACT_121238
Synthesis of PE (1) REACT_120919
Synthesis of PG (3) REACT_121280
Synthesis of PI (1) REACT_121000
Synthesis of Prostaglandins (PG) and Thromboxanes (TX) (2) REACT_150149
Synthesis of PS (1) REACT_120823
Synthesis of UDP-N-acetyl-glucosamine (2) REACT_22394
Synthesis of very long-chain fatty acyl-CoAs (3) REACT_380
Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) (7) REACT_24019
Synthesis, secretion, and inactivation of Glucose-dependent Insulinotropic Polypeptide (GIP) (3) REACT_23824
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) (2) REACT_160156
The retinoid cycle in cones (daylight vision) (1) REACT_160083
Thyroxine biosynthesis (2) REACT_15292
Transcriptional activation of mitochondrial biogenesis (3) REACT_200608
Transcriptional regulation of white adipocyte differentiation (3) REACT_27161
Transport and synthesis of PAPS (1) REACT_6840
Transport of fatty acids (4) REACT_23892
Transport of glycerol from adipocytes to the liver by Aquaporins (1) REACT_23809
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 (12) REACT_1206
Transport of nucleotide sugars (2) REACT_22151
Transport of organic anions (4) REACT_23988
Transport of vitamins, nucleosides, and related molecules (1) REACT_22285
Triglyceride Biosynthesis (2) REACT_1190
Tryptophan catabolism (6) REACT_916
Ubiquinol biosynthesis (2) REACT_160111
Unblocking of NMDA receptor, glutamate binding and activation (1) REACT_20594
Uptake and function of anthrax toxins (1) REACT_228255
Urea cycle (6) REACT_847
Utilization of Ketone Bodies (1) REACT_59
Vasopressin regulates renal water homeostasis via Aquaporins (1) REACT_24023
VEGFR2 mediated vascular permeability (2) REACT_228016
Vitamin B2 (riboflavin) metabolism (1) REACT_11070
Vitamin C (ascorbate) metabolism (1) REACT_11202
Vitamin D (calciferol) metabolism (1) REACT_13523
Vitamins (2) REACT_13450
Xenobiotics (1) REACT_13543
YAP1- and WWTR1 (TAZ)-stimulated gene expression (3) REACT_118713
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