Gene: SMPD3

55512
NSMASE2
sphingomyelin phosphodiesterase 3
protein-coding
16q22.1
Ensembl:ENSG00000103056 MIM:605777 Vega:OTTHUMG00000137559 UniprotKB:Q9NY59
NC_000016.10
PubMed
0   ANCO-SNPs
ND
2   
NA (AD)  NA (ND)   (Frontal_Cortex)
7.245e-1 (AD)  1.878e-1 (ND)

DNA Methylation

Probe Locus(GRCh37) Gene Region p-val Trait PubMed ID
cg26906642chr16:68394729SMPD33'UTR5.685e-5Alcohol use disorders26763658
cg07735969chr16:68418473SMPD31.360e-8Alcohol consumption der day27843151

Gene Expression in Different Tissues

Temporal and Spatial Expressions (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes average value of the expressions.

Top Co-expressed Genes in Brain-Frontal Cortex (BA9) (GTEx v7)

Top 10 positively co-expressed genes

Gene Symbol Pearson Correlation Coefficient
RAI10.939
C2CD2L0.936
TRIM460.932
TANC20.932
UBE2O0.931
B4GALNT10.929
NGEF0.928
PGBD50.928
LRTM20.927
TBC1D250.926

Top 10 negatively co-expressed genes

Gene Symbol Pearson Correlation Coefficient
MYL3-0.585
YES1-0.559
COPZ2-0.545
RAB13-0.526
GNG11-0.526
RNF135-0.52
PHEX-0.515
WWTR1-0.515
HEY2-0.511
CSAG1-0.508

Drugs/Compounds

ID Drug Name Drug Type CAS Num Status Role
DB00144Phosphatidyl serineSmall Molecule1446756-47-3Approved|Investigational|NutraceuticalTarget
ID Drug Name Action PubMed
C0700461,2-dioleoyloxy-3-(trimethylammonium)propane"[Cholesterol co-treated with 1,2-dioleoyloxy-3-(trimethylammonium)propane] results in increased expression of SMPD3 mRNA"22129739
C0284741,4-bis(2-(3,5-dichloropyridyloxy))benzene"1,4-bis(2-(3,5-dichloropyridyloxy))benzene results in increased expression of SMPD3 mRNA"22698814|2890350
C5486512-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester2-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester results in increased expression of SMPD3 mRNA19933214
C0297902,2',3',4,4',5-hexachlorobiphenyl"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SMPD3 mRNA"25510870
C1111182',3,3',4',5-pentachloro-4-hydroxybiphenyl"2',3,3',4',5-pentachloro-4-hydroxybiphenyl results in decreased expression of SMPD3 mRNA"19114083
C0817662,4,4'-trichlorobiphenyl"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SMPD3 mRNA"25510870
C0140242,4,5,2',4',5'-hexachlorobiphenyl"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SMPD3 mRNA"25510870
C0140242,4,5,2',4',5'-hexachlorobiphenyl"2,4,5,2',4',5'-hexachlorobiphenyl results in increased expression of SMPD3 mRNA"20005886
C0098282,4,5,2',5'-pentachlorobiphenyl"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SMPD3 mRNA"25510870
C0164032,4-dinitrotoluene"2,4-dinitrotoluene affects the expression of SMPD3 mRNA"21346803
C0094072,5,2',5'-tetrachlorobiphenyl"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SMPD3 mRNA"25510870
C0230353,4,5,3',4'-pentachlorobiphenyl"3,4,5,3',4'-pentachlorobiphenyl results in decreased expression of SMPD3 mRNA"23196670
C0144643,4-dichloroaniline"3,4-dichloroaniline results in increased expression of SMPD3 mRNA"24172598
C0293704-toluidine4-toluidine results in decreased expression of SMPD3 mRNA27638505
C5085046,7-dimethyl-2-(2E)-3-(1-methyl-2-phenyl-1H-pyrrolo(2,3-b)pyridin-3-yl-prop-2-enoyl)-1,2,3,4-tetrahydroisoquinoline hydrochloride"6,7-dimethyl-2-(2E)-3-(1-methyl-2-phenyl-1H-pyrrolo(2,3-b)pyridin-3-yl-prop-2-enoyl)-1,2,3,4-tetrahydroisoquinoline hydrochloride inhibits the reaction [TGFB1 protein results in increased expression of SMPD3 mRNA]"21480330
D000082AcetaminophenAcetaminophen results in decreased expression of SMPD3 mRNA26690555
D000082AcetaminophenAcetaminophen affects the expression of SMPD3 mRNA17562736
C006632arsenic trioxidearsenic trioxide results in increased expression of SMPD3 mRNA20458559
C080985batimastatbatimastat inhibits the reaction [Tyramine results in increased activity of SMPD3 protein]17561096
C022921benzo(k)fluoranthenebenzo(k)fluoranthene results in increased expression of SMPD3 mRNA26377693
D004958Estradiol[bisphenol A co-treated with Estradiol] results in increased expression of SMPD3 mRNA26496021
C006780bisphenol A[bisphenol A co-treated with Estradiol] results in increased expression of SMPD3 mRNA26496021
C006780bisphenol Abisphenol A results in decreased expression of SMPD3 mRNA25181051
D002084Butylated HydroxytolueneButylated Hydroxytoluene inhibits the reaction [Tyramine results in increased activity of SMPD3 protein]17561096
C055494caffeic acid phenethyl ester[caffeic acid phenethyl ester co-treated with Dietary Fats] results in decreased expression of SMPD3 mRNA28223344
C055494caffeic acid phenethyl esterGW 4064 inhibits the reaction [[caffeic acid phenethyl ester co-treated with Dietary Fats] results in decreased expression of SMPD3 mRNA]28223344
C055494caffeic acid phenethyl esterNR1H4 protein affects the reaction [[caffeic acid phenethyl ester co-treated with Dietary Fats] results in decreased expression of SMPD3 mRNA]28223344
D002110Caffeine"Caffeine affects the reaction [1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine results in increased expression of SMPD3 mRNA]"20230807
D002110Caffeine"[Caffeine co-treated with 1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine] results in increased expression of SMPD3 mRNA"20230807
D002166CamptothecinCamptothecin results in increased expression of SMPD3 mRNA19698806
C084597chlorcyclizinechlorcyclizine results in increased expression of SMPD3 mRNA21058326
D002784Cholesterol"[Cholesterol co-treated with 1,2-dioleoyloxy-3-(trimethylammonium)propane] results in increased expression of SMPD3 mRNA"22129739
D002794Choline[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in increased expression of SMPD3 mRNA20938992
C031180chrysenechrysene results in increased expression of SMPD3 mRNA26377693
D019327Copper SulfateCopper Sulfate results in decreased expression of SMPD3 mRNA19549813
C093628cyproconazolecyproconazole results in increased expression of SMPD3 mRNA22334560
D003630DaunorubicinDaunorubicin results in increased expression of SMPD3 mRNA19698806
D003630DaunorubicinDaunorubicin results in increased expression of SMPD3 protein19698806
D003630DaunorubicinSMPD3 results in increased susceptibility to Daunorubicin19698806
C014347decitabine[[decitabine co-treated with trichostatin A] affects the methylation of SMPD3 promoter] which affects the expression of SMPD3 mRNA18836996|1883699
D003976DiazinonDiazinon affects the expression of SMPD3 mRNA22546817
D003999Dichloroacetic AcidDichloroacetic Acid results in increased expression of SMPD3 mRNA28962523
D004026DieldrinDieldrin affects the expression of SMPD3 mRNA22546817
D004041Dietary Fats[caffeic acid phenethyl ester co-treated with Dietary Fats] results in decreased expression of SMPD3 mRNA28223344
D004041Dietary FatsDietary Fats results in increased expression of SMPD3 mRNA22609946
D004041Dietary FatsGW 4064 inhibits the reaction [[caffeic acid phenethyl ester co-treated with Dietary Fats] results in decreased expression of SMPD3 mRNA]28223344
D004041Dietary FatsNR1H4 protein affects the reaction [[caffeic acid phenethyl ester co-treated with Dietary Fats] results in decreased expression of SMPD3 mRNA]28223344
D004052DiethylnitrosamineDiethylnitrosamine results in increased expression of SMPD3 mRNA24535843
D004052DiethylnitrosamineDiethylnitrosamine results in increased expression of SMPD3 mRNA20387270
C015835dimethyl-4-toluidinedimethyl-4-toluidine results in decreased expression of SMPD3 mRNA27638505
D004237DiuronDiuron metabolite results in increased expression of SMPD3 mRNA24172598
D004237DiuronDiuron results in decreased expression of SMPD3 mRNA25152437
C109476epoxiconazoleepoxiconazole results in increased expression of SMPD3 mRNA22334560|2397080
D004997Ethinyl EstradiolEthinyl Estradiol affects the expression of SMPD3 mRNA17555576
D004997Ethinyl EstradiolEthinyl Estradiol results in increased expression of SMPD3 mRNA17557909
C540355fenamidonefenamidone results in decreased expression of SMPD3 mRNA27029645
D011345FenofibrateFenofibrate results in increased expression of SMPD3 mRNA21318169
D011345Fenofibrate[PPARA protein affects the susceptibility to Fenofibrate] which affects the expression of SMPD3 mRNA21318169
D005419FlavonoidsFlavonoids results in increased expression of SMPD3 mRNA18035473
D005492Folic Acid[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in increased expression of SMPD3 mRNA20938992
C039281furanfuran results in decreased expression of SMPD3 mRNA26194646
D005944GlucosamineGlucosamine results in decreased expression of SMPD3 mRNA17109745
C412815GW 4064GW 4064 inhibits the reaction [[caffeic acid phenethyl ester co-treated with Dietary Fats] results in decreased expression of SMPD3 mRNA]28223344
C468773GW 4869GW 4869 results in increased activity of SMPD3 protein12566438
D017313FenretinideFenretinide results in decreased expression of SMPD3 mRNA28973697
D006861Hydrogen PeroxideHydrogen Peroxide affects the expression of SMPD3 mRNA20044591
D006861Hydrogen PeroxideHydrogen Peroxide results in increased activity of SMPD3 protein17498692
C041508indeno(1,2,3-cd)pyrene"indeno(1,2,3-cd)pyrene results in decreased expression of SMPD3 mRNA"26377693
C098607JP8 aviation fuelJP8 aviation fuel results in decreased expression of SMPD3 protein17337753
C561695(+)-JQ1 compound(+)-JQ1 compound results in increased expression of SMPD3 mRNA26752646
D008095Lithocholic AcidLithocholic Acid results in increased expression of SMPD3 mRNA21480330
D015636Magnesium Chloride[Magnesium Chloride co-treated with Phosphatidylserines] promotes the reaction [SMPD3 protein results in increased degradation of Sphingomyelins]12566438
D008715Methionine[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in increased expression of SMPD3 mRNA20938992
D008727MethotrexateMethotrexate affects the expression of SMPD3 mRNA18502557
D0156321-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine"1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine results in increased expression of SMPD3 mRNA"20230807
D0156321-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine"Caffeine affects the reaction [1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine results in increased expression of SMPD3 mRNA]"20230807
D0156321-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine"[Caffeine co-treated with 1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine] results in increased expression of SMPD3 mRNA"20230807
D0156321-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine"[Nicotine co-treated with 1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine] results in decreased expression of SMPD3 mRNA"20230807
D0156321-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine"Nicotine inhibits the reaction [1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine results in increased expression of SMPD3 mRNA]"20230807
C066851mithramycin Amithramycin A results in decreased expression of SMPD3 mRNA19698806
C583365N-(2-(1,1'-bicyclopropyl)-2-ylphenyl)-3-(difluoromethyl)-1-methyl-1H-pyrazole-4-carboxamide"N-(2-(1,1'-bicyclopropyl)-2-ylphenyl)-3-(difluoromethyl)-1-methyl-1H-pyrazole-4-carboxamide results in increased expression of SMPD3 mRNA"29244179
D037742Nanotubes, Carbon"Nanotubes, Carbon analog results in increased expression of SMPD3 mRNA"25620056
D037742Nanotubes, Carbon"Nanotubes, Carbon results in increased expression of SMPD3 mRNA"25620056
D0150581-Naphthylisothiocyanate1-Naphthylisothiocyanate results in increased expression of SMPD3 mRNA27853831
C022838nickel chloridenickel chloride affects the expression of SMPD3 mRNA22546817
D009538Nicotine"[Nicotine co-treated with 1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine] results in decreased expression of SMPD3 mRNA"20230807
D009538Nicotine"Nicotine inhibits the reaction [1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine results in increased expression of SMPD3 mRNA]"20230807
C014707nitrosobenzylmethylaminenitrosobenzylmethylamine results in increased expression of SMPD3 mRNA17616710
C030110oxaliplatin[oxaliplatin co-treated with Topotecan] results in increased expression of SMPD3 mRNA25729387
C030110oxaliplatinoxaliplatin results in increased expression of SMPD3 mRNA25729387
C410127PCB 180"[2,4,4'-trichlorobiphenyl co-treated with 2,5,2',5'-tetrachlorobiphenyl co-treated with 2,4,5,2',5'-pentachlorobiphenyl co-treated with 2,2',3',4,4',5-hexachlorobiphenyl co-treated with 2,4,5,2',4',5'-hexachlorobiphenyl co-treated with PCB 180] results in increased expression of SMPD3 mRNA"25510870
D010634PhenobarbitalPhenobarbital results in increased expression of SMPD3 mRNA19482888|2309116
D010718Phosphatidylserines[Magnesium Chloride co-treated with Phosphatidylserines] promotes the reaction [SMPD3 protein results in increased degradation of Sphingomyelins]12566438
D010718PhosphatidylserinesPhosphatidylserines results in increased activity of SMPD3 protein12566438
C006253pirinixic acidpirinixic acid results in decreased expression of SMPD3 mRNA17426115|2081375
C006253pirinixic acidpirinixic acid results in increased expression of SMPD3 mRNA23811191
C006253pirinixic acidPPARA protein affects the reaction [pirinixic acid results in decreased expression of SMPD3 mRNA]21318169
D011374ProgesteroneProgesterone results in decreased expression of SMPD3 mRNA23018184
D011374ProgesteroneProgesterone results in decreased expression of SMPD3 mRNA19690047
C045950propiconazolepropiconazole results in increased expression of SMPD3 mRNA21278054|2233456
C005556propionaldehydepropionaldehyde results in decreased expression of SMPD3 mRNA26079696
D011441PropylthiouracilPropylthiouracil results in increased expression of SMPD3 mRNA24780913
D017382Reactive Oxygen Species[Tyramine results in increased activity of MAOA protein] promotes the reaction [[Reactive Oxygen Species results in increased activity of MMP2 protein] which results in increased activity of SMPD3 protein]17561096
C063456Ro 41-1049Ro 41-1049 inhibits the reaction [Tyramine results in increased activity of SMPD3 protein]17561096
C009277sodium arsenatesodium arsenate results in decreased expression of SMPD3 mRNA21795629
C016104sodium bichromatesodium bichromate results in decreased expression of SMPD3 mRNA25993096
D013109Sphingomyelins[Magnesium Chloride co-treated with Phosphatidylserines] promotes the reaction [SMPD3 protein results in increased degradation of Sphingomyelins]12566438
D013749TetrachlorodibenzodioxinTetrachlorodibenzodioxin results in increased expression of SMPD3 mRNA23152189
D013749TetrachlorodibenzodioxinTetrachlorodibenzodioxin affects the expression of SMPD3 mRNA21570461
D013749TetrachlorodibenzodioxinTetrachlorodibenzodioxin results in decreased expression of SMPD3 mRNA20005886
D013749TetrachlorodibenzodioxinTetrachlorodibenzodioxin results in increased expression of SMPD3 mRNA19933214
D013749TetrachlorodibenzodioxinTetrachlorodibenzodioxin affects the expression of SMPD3 mRNA22298810
D013749TetrachlorodibenzodioxinTetrachlorodibenzodioxin results in decreased expression of SMPD3 mRNA21215274|2196442
C009495titanium dioxidetitanium dioxide results in increased expression of SMPD3 mRNA23557971
D019772Topotecan[oxaliplatin co-treated with Topotecan] results in increased expression of SMPD3 mRNA25729387
D019772TopotecanTopotecan results in increased expression of SMPD3 mRNA25729387
D014212TretinoinTretinoin results in decreased expression of SMPD3 mRNA23724009
C032910triadimefontriadimefon results in increased expression of SMPD3 mRNA23970803
C012589trichostatin A[[decitabine co-treated with trichostatin A] affects the methylation of SMPD3 promoter] which affects the expression of SMPD3 mRNA18836996|1883699
C013320tris(2-butoxyethyl) phosphatetris(2-butoxyethyl) phosphate affects the expression of SMPD3 mRNA29024780
D014439Tyraminebatimastat inhibits the reaction [Tyramine results in increased activity of SMPD3 protein]17561096
D014439TyramineButylated Hydroxytoluene inhibits the reaction [Tyramine results in increased activity of SMPD3 protein]17561096
D014439TyramineRo 41-1049 inhibits the reaction [Tyramine results in increased activity of SMPD3 protein]17561096
D014439Tyramine[Tyramine results in increased activity of MAOA protein] promotes the reaction [[Reactive Oxygen Species results in increased activity of MMP2 protein] which results in increased activity of SMPD3 protein]17561096
D014439Tyramine[Tyramine results in increased activity of MMP2 protein] which results in increased activity of SMPD3 protein17561096
D014439TyramineTyramine results in increased activity of SMPD3 protein17561096
C022884undecaneundecane results in decreased expression of SMPD3 protein17337753
D014520UrethaneUrethane results in increased expression of SMPD3 mRNA28818685
D014635Valproic AcidValproic Acid results in increased methylation of SMPD3 gene29154799
D019287Zinc SulfateZinc Sulfate results in increased expression of SMPD3 mRNA27504894

GO/Pathway

GO ID GO Term Qualifier Evidence PubMed
GO:0004767sphingomyelin phosphodiesterase activity-IEA-  
GO:0005515protein binding-IPI20080539  
GO:0046872metal ion binding-IEA-  
GO ID GO Term Qualifier Evidence PubMed
GO:0002244hematopoietic progenitor cell differentiation-IEA-  
GO:0006685sphingomyelin catabolic process-TAS10823942  
GO:0007049cell cycle-IEA-  
GO:0030072peptide hormone secretion-IEA-  
GO:1903543positive regulation of exosomal secretion-ISS-  
GO:2000304positive regulation of ceramide biosynthetic process-TAS-  
GO ID GO Term Qualifier Evidence PubMed
GO:0000137Golgi cis cisterna-IEA-  
GO:0000139Golgi membrane-IEA-  
GO:0005886plasma membrane-TAS-  
KEGG ID KEGG Term
hsa00600Sphingolipid metabolism
hsa01100Metabolic pathways
Reactome ID Reactome Term Evidence
R-HSA-1430728MetabolismTAS
R-HSA-162582Signal TransductionTAS
R-HSA-1660662Glycosphingolipid metabolismTAS
R-HSA-428157Sphingolipid metabolismTAS
R-HSA-556833Metabolism of lipidsTAS
R-HSA-5626978TNFR1-mediated ceramide productionTAS
R-HSA-73887Death Receptor SignallingTAS
R-HSA-75893TNF signalingTAS

Interactions (STRING v10.5, Interaction Score >= 0.400)

Publications (Co-occurrence of gene symbol strings and ANCO-Dependence terms)

PMID Title (Year) Author Journal
23599765Abnormal methylation of seven genes and their associations with clinical characteristics in early stage non-small cell lung cancer. (2013 Apr)Zhao YOncol Lett
24964093Prenatal tobacco smoke exposure is associated with childhood DNA CpG methylation. (2014)Breton CVPLoS One