Gene info: ID 53615

Gene: MBD3

GENE ID: 53615

Synonyms: -

Description: methyl-CpG binding domain protein 3

Gene type: protein-coding

Location: 19p13.3

dbXrefs: Ensembl:ENSG00000071655 MIM:603573 Vega:OTTHUMG00000180081 UniprotKB:O95983

RefSeq: NG_029897.2

Retrived from: PubMed|SNP Mapped

SNPs: 1 ANCO-SNPs

Phenotype: AD

# Publications: 1

Sherlock p-value : NA (AD) NA (ND) (Frontal_Cortex)

Pascal p-value : 1.811e-1 (AD) 4.949e-1 (ND)

ANCO-SNPs

SNP ID	Position	Alleles	Trait	Variation Type
rs7252741	chr19:1580335 (GRCh38.p7)	T>C	alcohol dependence	SNV(Single Nucleotide Variation)

DNA Methylation

Probe	Locus(GRCh37)	Gene	Region	p-val	Trait	PubMed ID
cg18625289	chr19:1591035	MBD3		3.290e-8	Maternal smoking in pregnancy	27040690
cg18625289	chr19:1591035	MBD3		5.010e-12	Maternal smoking in pregnancy	27040690
cg18625289	chr19:1591035	MBD3		4.720e-14	Maternal smoking in pregnancy	27040690

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
PALM	0.946
PPP1R16A	0.934
DVL1	0.933
ZNF358	0.928
ABHD17A	0.919
CSNK1G2	0.919
FBXW5	0.916
BTBD2	0.915
NSMF	0.909
CCM2	0.905

Top 10 negatively co-expressed genes

Gene Symbol	Pearson Correlation Coefficient
OR4F5	-0.782
OR4F29	-0.754
KCNJ15	-0.282
STEAP4	-0.278
CEACAM3	-0.266
NLRP12	-0.262
C1orf87	-0.261
VNN2	-0.26
TECRL	-0.259
IL18RAP	-0.257

There is no DrugBank record for this gene !

ID	Drug Name	Action	PubMed
C028474	1,4-bis(2-(3,5-dichloropyridyloxy))benzene	"1,4-bis(2-(3,5-dichloropyridyloxy))benzene results in increased expression of MBD3 mRNA"	21354444
C023514	2,6-dinitrotoluene	"2,6-dinitrotoluene affects the expression of MBD3 mRNA"	21346803
C035207	4-amino-2,6-dinitrotoluene	"4-amino-2,6-dinitrotoluene affects the expression of MBD3 mRNA"	21346803
D000082	Acetaminophen	Acetaminophen affects the expression of MBD3 mRNA	17562736
C006632	arsenic trioxide	arsenic trioxide results in decreased expression of MBD3 mRNA	22521957
C072553	benzyloxycarbonylleucyl-leucyl-leucine aldehyde	benzyloxycarbonylleucyl-leucyl-leucine aldehyde inhibits the reaction [Ethanol results in increased degradation of MBD3 protein]	23395981
C006780	bisphenol A	bisphenol A results in increased expression of MBD3 mRNA	26063408
C006780	bisphenol A	bisphenol A results in decreased expression of MBD3 mRNA	25181051
C013418	bromfenacoum	bromfenacoum results in increased expression of MBD3 protein	28903499
D020122	tert-Butylhydroperoxide	tert-Butylhydroperoxide results in decreased expression of MBD3 mRNA	15336504
D003300	Copper	[NSC 689534 binds to Copper] which results in decreased expression of MBD3 mRNA	20971185
D019327	Copper Sulfate	Copper Sulfate results in decreased expression of MBD3 mRNA	19549813
D016572	Cyclosporine	Cyclosporine results in decreased expression of MBD3 mRNA	25562108
C014347	decitabine	decitabine results in increased expression of MBD3 mRNA	17908484
D003993	Dibutyl Phthalate	Dibutyl Phthalate results in decreased expression of MBD3 mRNA	17361019
D002945	Cisplatin	Cisplatin results in decreased expression of MBD3 mRNA	27392435
D002945	Cisplatin	Cisplatin results in increased phosphorylation of MBD3 protein	22006019
D004791	Enzyme Inhibitors	[Enzyme Inhibitors results in decreased activity of OGA protein] which results in increased O-linked glycosylation of MBD3 protein	23301498
D000431	Ethanol	benzyloxycarbonylleucyl-leucyl-leucine aldehyde inhibits the reaction [Ethanol results in increased degradation of MBD3 protein]	23395981
D000431	Ethanol	Ethanol results in decreased expression of MBD3 mRNA	23395981
D000431	Ethanol	Ethanol results in decreased expression of MBD3 protein	23395981
D000431	Ethanol	Ethanol results in increased degradation of MBD3 protein	23395981
D000431	Ethanol	Ethanol results in increased expression of MBD3 mRNA	23395981
D004997	Ethinyl Estradiol	Ethinyl Estradiol affects the expression of MBD3 mRNA	17555576
D004997	Ethinyl Estradiol	Ethinyl Estradiol results in increased expression of MBD3 mRNA	17942748
D004997	Ethinyl Estradiol	[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of MBD3 mRNA	17942748
D018120	Finasteride	Finasteride results in increased expression of MBD3 mRNA	24136188
D005897	Glafenine	Glafenine results in increased expression of MBD3 mRNA	24136188
C045463	leflunomide	leflunomide results in increased expression of MBD3 mRNA	24136188
D008344	Maneb	[Paraquat co-treated with Maneb] results in decreased expression of MBD3 mRNA	18386188
D008344	Maneb	[Paraquat co-treated with Maneb] results in increased expression of MBD3 mRNA	18386188
D008727	Methotrexate	MBD3 protein affects the susceptibility to Methotrexate	16217747
D037742	Nanotubes, Carbon	"Nanotubes, Carbon analog results in increased expression of MBD3 mRNA"	25554681
D037742	Nanotubes, Carbon	"Nanotubes, Carbon results in increased expression of MBD3 mRNA"	25554681
C012655	nimesulide	nimesulide results in increased expression of MBD3 mRNA	24136188
C558013	NSC 689534	[NSC 689534 binds to Copper] which results in decreased expression of MBD3 mRNA	20971185
D010269	Paraquat	[Paraquat co-treated with Maneb] results in decreased expression of MBD3 mRNA	18386188
D010269	Paraquat	[Paraquat co-treated with Maneb] results in increased expression of MBD3 mRNA	18386188
D052638	Particulate Matter	Particulate Matter results in increased expression of MBD3 mRNA	15046786
C006253	pirinixic acid	pirinixic acid results in increased expression of MBD3 mRNA	18301758
C009131	pyrimidin-2-one beta-ribofuranoside	pyrimidin-2-one beta-ribofuranoside results in decreased expression of MBD3 protein	19459041
C059514	resveratrol	resveratrol results in decreased expression of MBD3 protein	25505154
D012643	Selenium	Selenium results in increased expression of MBD3 mRNA	19244175
D013467	Sulindac	Sulindac results in decreased expression of MBD3 mRNA	24136188
D014284	Triiodothyronine	Triiodothyronine affects the expression of MBD3 mRNA	17403546
D013629	Tamoxifen	Tamoxifen affects the expression of MBD3 mRNA	17555576
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin affects the expression of MBD3 mRNA	21570461
D013749	Tetrachlorodibenzodioxin	[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of MBD3 mRNA	17942748
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin results in increased expression of MBD3 mRNA	17942748
D014635	Valproic Acid	Valproic Acid affects the expression of MBD3 mRNA	25979313
D014635	Valproic Acid	Valproic Acid results in decreased expression of MBD3 mRNA	22083351
D014635	Valproic Acid	Valproic Acid results in increased methylation of MBD3 gene	29154799
D014635	Valproic Acid	Valproic Acid results in decreased expression of MBD3 mRNA	21427059
D001335	Vehicle Emissions	Vehicle Emissions results in increased expression of MBD3 mRNA	15046786
C025643	vinclozolin	vinclozolin results in decreased expression of MBD3 mRNA	23034163
C111237	vorinostat	vorinostat results in decreased expression of MBD3 mRNA	22083351

GO/Pathway

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000978	RNA polymerase II proximal promoter sequence-specific DNA binding	contributes_to	HDA	16217013
GO:0000980	RNA polymerase II distal enhancer sequence-specific DNA binding	contributes_to	HDA	16217013
GO:0003677	DNA binding	-	TAS	9774669
GO:0004407	histone deacetylase activity	-	TAS	-
GO:0005515	protein binding	-	IPI	12183469 19703393 20676135 21258344 23455924 23752268 24048479 25123934 25416956 26496610
GO:0008327	methyl-CpG binding	-	IBA	21873635
GO:0008327	methyl-CpG binding	-	IDA	24307175
GO:0031492	nucleosomal DNA binding	contributes_to	HDA	16217013

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000122	negative regulation of transcription by RNA polymerase II	-	IBA	21873635
GO:0001701	in utero embryonic development	-	IEA	-
GO:0006346	methylation-dependent chromatin silencing	-	IBA	21873635
GO:0006351	transcription, DNA-templated	-	IEA	-
GO:0007420	brain development	-	IEA	-
GO:0007507	heart development	-	IEA	-
GO:0007568	aging	-	IEA	-
GO:0009888	tissue development	-	IEA	-
GO:0016573	histone acetylation	-	IEA	-
GO:0016575	histone deacetylation	-	IEA	-
GO:0031667	response to nutrient levels	-	IEA	-
GO:0032355	response to estradiol	-	IEA	-
GO:0043044	ATP-dependent chromatin remodeling	-	HDA	16217013
GO:0044030	regulation of DNA methylation	-	IEA	-
GO:0048568	embryonic organ development	-	IEA	-

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000790	nuclear chromatin	-	HDA	16217013
GO:0000792	heterochromatin	-	IEA	-
GO:0005634	nucleus	-	IBA	21873635
GO:0005654	nucleoplasm	-	TAS	-
GO:0005737	cytoplasm	-	IEA	-
GO:0016581	NuRD complex	-	NAS	17827154
GO:0032991	protein-containing complex	-	HDA	16217013

KEGG ID	KEGG Term

Reactome ID	Reactome Term	Evidence
R-HSA-1257604	PIP3 activates AKT signaling	TAS
R-HSA-1257604	PIP3 activates AKT signaling	IEA
R-HSA-162582	Signal Transduction	TAS
R-HSA-162582	Signal Transduction	IEA
R-HSA-212165	Epigenetic regulation of gene expression	IEA
R-HSA-212436	Generic Transcription Pathway	TAS
R-HSA-3214815	HDACs deacetylate histones	TAS
R-HSA-3247509	Chromatin modifying enzymes	TAS
R-HSA-3700989	Transcriptional Regulation by TP53	TAS
R-HSA-427389	ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression	IEA
R-HSA-4839726	Chromatin organization	TAS
R-HSA-5250913	Positive epigenetic regulation of rRNA expression	IEA
R-HSA-5633007	Regulation of TP53 Activity	TAS
R-HSA-6804758	Regulation of TP53 Activity through Acetylation	TAS
R-HSA-6807070	PTEN Regulation	TAS
R-HSA-6807070	PTEN Regulation	IEA
R-HSA-73762	RNA Polymerase I Transcription Initiation	TAS
R-HSA-73854	RNA Polymerase I Promoter Clearance	TAS
R-HSA-73857	RNA Polymerase II Transcription	TAS
R-HSA-73864	RNA Polymerase I Transcription	TAS
R-HSA-74160	Gene expression (Transcription)	TAS
R-HSA-74160	Gene expression (Transcription)	IEA
R-HSA-8943724	Regulation of PTEN gene transcription	TAS
R-HSA-8943724	Regulation of PTEN gene transcription	IEA
R-HSA-9006925	Intracellular signaling by second messengers	TAS
R-HSA-9006925	Intracellular signaling by second messengers	IEA

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

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

PMID	Title (Year)	Author	Journal
22924764	Array-based profiling of DNA methylation changes associated with alcohol dependence. (2013 Jan)	Zhang H	Alcohol Clin Exp Res