Gene info: ID 8841

Gene: HDAC3

GENE ID: 8841

Synonyms: HD3|RPD3|RPD3-2

Description: histone deacetylase 3

Gene type: protein-coding

Location: 5q31.3

dbXrefs: Ensembl:ENSG00000171720 MIM:605166 Vega:OTTHUMG00000129629 UniprotKB:O15379

RefSeq: NG_029678.1

Retrived from: PubMed

SNPs: 0 ANCO-SNPs

Phenotype: ND|AD

# Publications: 4

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

Pascal p-value : 3.747e-1 (AD) 2.404e-1 (ND)

DNA Methylation

There is no related methylation information for this gene.

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
KDM1A	0.952
ERCC3	0.948
HKR1	0.947
ACAD8	0.944
QRICH1	0.943
TCF25	0.939
CDK5RAP1	0.937
XPNPEP1	0.936
HARS	0.936
VPS16	0.933

Top 10 negatively co-expressed genes

Gene Symbol	Pearson Correlation Coefficient
OR4F5	-0.69
OR4F29	-0.643
MTRNR2L9	-0.314
MTRNR2L6	-0.302
RAI14	-0.268
CTNNA3	-0.267
MTRNR2L10	-0.264
ANXA13	-0.256
SH2D1A	-0.25
TRPV5	-0.25

ID	Drug Name	Drug Type	CAS Num	Status	Role
DB02546	Vorinostat	Small Molecule	149647-78-9	Approved\|Investigational	Target
DB05223	Pracinostat	Small Molecule		Investigational	Target
DB11830	Mocetinostat	Small Molecule	726169-73-9	Investigational	Target
DB05015	Belinostat	Small Molecule	866323-14-0	Approved\|Investigational	Target
DB06603	Panobinostat	Small Molecule	404950-80-7	Approved\|Investigational	Target

ID	Drug Name	Action	PubMed
C097240	15-deoxy-delta(12,14)-prostaglandin J2	"15-deoxy-delta(12,14)-prostaglandin J2 results in decreased expression of HDAC3 mRNA"	21957481
C009505	4,4'-diaminodiphenylmethane	"4,4'-diaminodiphenylmethane results in decreased expression of HDAC3 mRNA"	18648102
C029370	4-toluidine	4-toluidine results in increased expression of HDAC3 mRNA	27638505
C016601	afimoxifene	afimoxifene promotes the reaction [HDAC3 protein binds to TFF1 promoter]	19858209
D016604	Aflatoxin B1	Aflatoxin B1 results in increased methylation of HDAC3 gene	27153756
D000643	Ammonium Chloride	Ammonium Chloride affects the expression of HDAC3 mRNA	16483693
D001241	Aspirin	HDAC3 inhibits the reaction [Aspirin results in increased acetylation of and results in increased activity of NOS3 protein]	20705923
D001241	Aspirin	HDAC3 protein inhibits the reaction [Aspirin promotes the reaction [NOS3 protein binds to CALM1 protein]]	20705923
C037689	benzamide	benzamide analog results in decreased activity of HDAC3 protein	19362838
D001564	Benzo(a)pyrene	Benzo(a)pyrene results in increased expression of HDAC3 mRNA	22209252
D001564	Benzo(a)pyrene	Benzo(a)pyrene results in decreased expression of HDAC3 protein	26358852
D004958	Estradiol	Estradiol inhibits the reaction [sodium arsenite results in increased expression of HDAC3 mRNA]	22952798
D004958	Estradiol	Estradiol results in decreased expression of HDAC3 mRNA	22952798
D001629	Bezafibrate	[Bezafibrate promotes the reaction [PPARA protein binds to FGF21 promoter]] which results in decreased expression of HDAC3 protein	22338096
C006780	bisphenol A	bisphenol A affects the expression of HDAC3 mRNA	21786754
C006780	bisphenol A	bisphenol A results in decreased expression of HDAC3 mRNA	29275510
C006780	bisphenol A	bisphenol A results in decreased expression of HDAC3 mRNA	27697584
C006780	bisphenol A	bisphenol A results in increased methylation of HDAC3 gene	28505145
C005961	bis(tri-n-butyltin)oxide	bis(tri-n-butyltin)oxide results in decreased expression of HDAC3 mRNA	17553608
D015124	8-Bromo Cyclic Adenosine Monophosphate	8-Bromo Cyclic Adenosine Monophosphate results in decreased expression of HDAC3 mRNA	22079614
D002087	Butyrates	Butyrates results in decreased activity of HDAC3 protein	15930892
D002087	Butyrates	[Butyrates results in decreased activity of HDAC3 protein] which results in increased expression of FGF21 mRNA	22338096
D002087	Butyrates	Butyrates results in decreased expression of HDAC3 protein	22338096
D002087	Butyrates	Butyrates results in decreased activity of HDAC3 protein	22338096
C584509	C646 compound	C646 compound results in decreased activity of HDAC3 protein	26718586
D019256	Cadmium Chloride	Cadmium Chloride results in increased expression of HDAC3 mRNA	12160620
D002220	Carbamazepine	Carbamazepine results in decreased activity of HDAC3 protein	15850602
C018021	cobaltous chloride	cobaltous chloride results in increased expression of HDAC3 protein	24386269
D019327	Copper Sulfate	Copper Sulfate results in decreased expression of HDAC3 mRNA	19789285
D019327	Copper Sulfate	Copper Sulfate results in increased expression of HDAC3 mRNA	19789285
D019327	Copper Sulfate	Copper Sulfate results in decreased expression of HDAC3 mRNA	19549813
C029892	cupric chloride	HDAC3 protein binds to cupric chloride	22699969
D003474	Curcumin	Curcumin results in decreased expression of HDAC3 protein	17927689
D013759	Dronabinol	Dronabinol results in increased expression of HDAC3 mRNA	16597638
D003907	Dexamethasone	Dexamethasone inhibits the reaction [RX3 gene mutant form affects the expression of HDAC3 mRNA]	27941970
D003907	Dexamethasone	HDAC3 protein affects the reaction [Dexamethasone results in decreased expression of CDON mRNA]	27645313
D003907	Dexamethasone	HDAC3 protein affects the reaction [Dexamethasone results in decreased expression of MEX3A mRNA]	27645313
D003976	Diazinon	Diazinon results in increased methylation of HDAC3 gene	22964155
D003993	Dibutyl Phthalate	Dibutyl Phthalate results in decreased expression of HDAC3 mRNA	21266533
D002945	Cisplatin	Cisplatin results in increased phosphorylation of HDAC3 protein	22006019
C036042	dicyclohexyl phthalate	dicyclohexyl phthalate affects the expression of HDAC3 mRNA	26924002
D004041	Dietary Fats	HDAC3 protein affects the reaction [[Streptozocin co-treated with Dietary Fats] results in decreased expression of MIR10A mRNA]	27292126
D004041	Dietary Fats	HDAC3 protein affects the reaction [[Streptozocin co-treated with Dietary Fats] results in increased expression of CREB1 protein]	27292126
D004041	Dietary Fats	HDAC3 protein affects the reaction [[Streptozocin co-treated with Dietary Fats] results in increased expression of FN1 protein]	27292126
D004041	Dietary Fats	[Streptozocin co-treated with Dietary Fats] results in increased expression of HDAC3 protein	27292126
D019813	1,2-Dimethylhydrazine	"1,2-Dimethylhydrazine affects the expression of HDAC3 protein"	26388957
D019813	1,2-Dimethylhydrazine	"NFE2L2 protein affects the reaction [1,2-Dimethylhydrazine affects the expression of HDAC3 protein]"	26388957
D019813	1,2-Dimethylhydrazine	"NFE2L2 protein affects the reaction [sulforafan affects the reaction [1,2-Dimethylhydrazine affects the expression of HDAC3 protein]]"	26388957
D019813	1,2-Dimethylhydrazine	"sulforafan affects the reaction [1,2-Dimethylhydrazine affects the expression of HDAC3 protein]"	26388957
C024629	dimethyl phthalate	dimethyl phthalate results in decreased expression of HDAC3 mRNA	26924002
D004726	Endosulfan	Endosulfan results in increased expression of HDAC3 mRNA	29054638
D004726	Endosulfan	Endosulfan results in increased expression of HDAC3 protein	29054638
C118739	entinostat	entinostat results in decreased activity of HDAC3 protein	25699604
D000431	Ethanol	Ethanol promotes the reaction [HDAC3 protein binds to HDAC4 protein binds to HDAC5 protein binds to HDAC7 protein]	23544086
D000431	Ethanol	tauroursodeoxycholic acid inhibits the reaction [Ethanol promotes the reaction [HDAC3 protein binds to HDAC4 protein binds to HDAC5 protein binds to HDAC7 protein]]	23544086
D004997	Ethinyl Estradiol	Ethinyl Estradiol results in decreased expression of HDAC3 mRNA	17475347
D004997	Ethinyl Estradiol	Ethinyl Estradiol results in increased expression of HDAC3 mRNA	17942748
D004997	Ethinyl Estradiol	[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of HDAC3 mRNA	17942748
D000068876	Fingolimod Hydrochloride	Fingolimod Hydrochloride metabolite results in decreased activity of HDAC3 protein	24859201
D005472	Fluorouracil	Fluorouracil results in decreased expression of HDAC3 mRNA	19272435
D005839	Gentamicins	Gentamicins results in increased expression of HDAC3 protein	19141081\|2355823
C492448	ICG 001	ICG 001 results in decreased expression of HDAC3 mRNA	26191083
D007854	Lead	Lead results in decreased expression of HDAC3 mRNA	19921347
C013099	mancozeb	mancozeb results in decreased activity of HDAC3 protein	21251949
D008344	Maneb	Maneb results in decreased activity of HDAC3 protein	21251949
C013598	methoxyacetic acid	methoxyacetic acid results in decreased activity of HDAC3 protein	15103026
C523184	mocetinostat	mocetinostat results in decreased expression of HDAC3 protein	26378038
C406082	monomethylarsonous acid	monomethylarsonous acid results in increased expression of HDAC3 mRNA	23891734
C517284	monomethyl phthalate	monomethyl phthalate affects the expression of HDAC3 mRNA	26924002
D009151	Mustard Gas	Mustard Gas results in increased expression of HDAC3 mRNA	15674844
C022838	nickel chloride	nickel chloride affects the expression of HDAC3 mRNA	22546817
C025589	ochratoxin A	ochratoxin A results in increased expression of HDAC3 protein	17651772
D010867	Pimelic Acids	Pimelic Acids analog results in decreased activity of HDAC3 protein	20098685
C008971	polymarcine	polymarcine results in decreased activity of HDAC3 protein	21251949
C472086	polyphenon E	polyphenon E results in decreased expression of HDAC3 protein	23285096
C472086	polyphenon E	TP53 mutant form promotes the reaction [polyphenon E results in decreased expression of HDAC3 protein]	23285096
C010313	pseudocumene	pseudocumene results in decreased expression of HDAC3 protein	17337753
C059514	resveratrol	resveratrol results in increased expression of HDAC3 mRNA	15767336
D012293	Rifampin	Rifampin inhibits the reaction [trichostatin A inhibits the reaction [[PIAS1 co-treated with SUMO3] inhibits the reaction [NCOR2 protein promotes the reaction [NR1I2 protein binds to HDAC3 protein]]]]	26883953
C017947	sodium arsenite	Estradiol inhibits the reaction [sodium arsenite results in increased expression of HDAC3 mRNA]	22952798
C017947	sodium arsenite	sodium arsenite results in increased expression of HDAC3 mRNA	22952798
C017947	sodium arsenite	sodium arsenite results in decreased expression of HDAC3 mRNA	19822182
D018038	Sodium Selenite	Sodium Selenite results in decreased expression of HDAC3 protein	18676679
D013311	Streptozocin	HDAC3 protein affects the reaction [[Streptozocin co-treated with Dietary Fats] results in decreased expression of MIR10A mRNA]	27292126
D013311	Streptozocin	HDAC3 protein affects the reaction [[Streptozocin co-treated with Dietary Fats] results in increased expression of CREB1 protein]	27292126
D013311	Streptozocin	HDAC3 protein affects the reaction [[Streptozocin co-treated with Dietary Fats] results in increased expression of FN1 protein]	27292126
D013311	Streptozocin	[Streptozocin co-treated with Dietary Fats] results in increased expression of HDAC3 protein	27292126
C016766	sulforafan	"NFE2L2 protein affects the reaction [sulforafan affects the reaction [1,2-Dimethylhydrazine affects the expression of HDAC3 protein]]"	26388957
C016766	sulforafan	"sulforafan affects the reaction [1,2-Dimethylhydrazine affects the expression of HDAC3 protein]"	26388957
C016766	sulforafan	sulforafan results in decreased expression of HDAC3 protein	26388957
D014284	Triiodothyronine	Triiodothyronine results in increased expression of HDAC3 mRNA	23306105
C021751	tanshinone	tanshinone results in increased expression of HDAC3 mRNA	15849732
C031655	tauroursodeoxycholic acid	tauroursodeoxycholic acid inhibits the reaction [Ethanol promotes the reaction [HDAC3 protein binds to HDAC4 protein binds to HDAC5 protein binds to HDAC7 protein]]	23544086
D013749	Tetrachlorodibenzodioxin	HDAC3 mutant form inhibits the reaction [[IL1B protein co-treated with Tetrachlorodibenzodioxin] results in increased expression of IL6 mRNA]	20511231
D013749	Tetrachlorodibenzodioxin	[IL1B protein co-treated with Tetrachlorodibenzodioxin] inhibits the reaction [HDAC3 protein binds to IL6 promoter]	20511231
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin affects the expression of HDAC3 mRNA	21570461
D013749	Tetrachlorodibenzodioxin	[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of HDAC3 mRNA	17942748
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin results in increased expression of HDAC3 mRNA	22493514
D013806	Theophylline	Theophylline results in increased activity of HDAC3 protein	12070353
C067071	trapoxin B	trapoxin B results in decreased activity of HDAC3 protein	15930892
D014212	Tretinoin	Tretinoin results in decreased expression of HDAC3 mRNA	17218384
D014212	Tretinoin	Tretinoin affects the reaction [HDAC3 protein binds to NR2C1 promoter]	17389641
C012589	trichostatin A	Rifampin inhibits the reaction [trichostatin A inhibits the reaction [[PIAS1 co-treated with SUMO3] inhibits the reaction [NCOR2 protein promotes the reaction [NR1I2 protein binds to HDAC3 protein]]]]	26883953
C012589	trichostatin A	trichostatin A affects the expression of HDAC3 mRNA	28542535
C012589	trichostatin A	trichostatin A inhibits the reaction [[PIAS1 co-treated with SUMO3] inhibits the reaction [NCOR2 protein promotes the reaction [NR1I2 protein binds to HDAC3 protein]]]	26883953
C012589	trichostatin A	trichostatin A results in decreased activity of HDAC3 protein	15103026\|1593089
C012589	trichostatin A	trichostatin A results in decreased expression of HDAC3 protein	18676679
C012589	trichostatin A	trichostatin A results in decreased activity of HDAC3 protein	25699604
C016805	tris(1,3-dichloro-2-propyl)phosphate	"tris(1,3-dichloro-2-propyl)phosphate results in increased expression of HDAC3 mRNA"	23306105
C031324	tris(chloroethyl)phosphate	tris(chloroethyl)phosphate results in increased expression of HDAC3 mRNA	27776230
C000602704	UF010 compound	UF010 compound results in decreased activity of HDAC3 protein	25699604
D014635	Valproic Acid	Valproic Acid results in decreased activity of HDAC3 protein	15103026
D014635	Valproic Acid	Valproic Acid results in increased expression of HDAC3 mRNA	29154799
C111237	vorinostat	vorinostat results in decreased activity of HDAC3 protein	15930892
C111237	vorinostat	vorinostat results in decreased activity of [HDAC3 protein binds to NCOR2 protein]	21548582
C111237	vorinostat	vorinostat results in decreased expression of HDAC3 protein	18850582
C111237	vorinostat	vorinostat results in decreased activity of HDAC3 protein	17988634\|2485920

GO/Pathway

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0003682	chromatin binding	-	IDA	16569215 18417529
GO:0003714	transcription corepressor activity	-	IDA	16569215 18417529
GO:0003714	transcription corepressor activity	-	IMP	12628926
GO:0004407	histone deacetylase activity	-	IMP	16924111 18326024
GO:0004407	histone deacetylase activity	-	TAS	12711221
GO:0005515	protein binding	-	IPI	10898795 11006275 11013263 11259576 11641274 11861901 15016912 15194749 15805470 16432238 16461912 16847267 16917504 16924111 16980585 17053781 17075044 17172643 17895379 17956988 18854353 19409814 20385135 21030595 21258344 21624135 21914818 22190034 22230954 23079660 23752268 24449765 25190803 26356530
GO:0008134	transcription factor binding	-	IPI	16569215
GO:0008134	transcription factor binding	-	TAS	12711221
GO:0019899	enzyme binding	-	IPI	11641274
GO:0030332	cyclin binding	-	IPI	18417529
GO:0032041	NAD-dependent histone deacetylase activity (H3-K14 specific)	-	IEA	-
GO:0033558	protein deacetylase activity	-	IDA	17172643
GO:0042826	histone deacetylase binding	-	IPI	10869435 12590135 23867755
GO:0051059	NF-kappaB binding	-	IPI	17785205

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000122	negative regulation of transcription by RNA polymerase II	-	IDA	16569215 18417529 18854353
GO:0000122	negative regulation of transcription by RNA polymerase II	-	IMP	12628926
GO:0001934	positive regulation of protein phosphorylation	-	IDA	25190803
GO:0006325	chromatin organization	-	TAS	12711221
GO:0006351	transcription, DNA-templated	-	IEA	-
GO:0006476	protein deacetylation	-	IDA	17172643 21030595
GO:0007623	circadian rhythm	-	TAS	-
GO:0010832	negative regulation of myotube differentiation	NOT	IMP	10983972
GO:0019216	regulation of lipid metabolic process	-	TAS	-
GO:0031647	regulation of protein stability	-	IDA	25190803
GO:0032008	positive regulation of TOR signaling	-	IMP	25190803
GO:0042307	positive regulation of protein import into nucleus	-	IDA	25190803
GO:0043066	negative regulation of apoptotic process	-	TAS	10777477
GO:0045892	negative regulation of transcription, DNA-templated	-	IMP	16924111
GO:0045944	positive regulation of transcription by RNA polymerase II	-	IDA	25190803
GO:0046329	negative regulation of JNK cascade	-	IMP	11931768
GO:0051225	spindle assembly	-	IMP	18326024
GO:0070932	histone H3 deacetylation	-	IEA	-
GO:0071498	cellular response to fluid shear stress	-	IDA	25190803

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000118	histone deacetylase complex	-	TAS	12711221
GO:0005634	nucleus	-	IDA	18326024 18347167 21030595
GO:0005634	nucleus	-	TAS	12711221
GO:0005654	nucleoplasm	-	IDA	-
GO:0005654	nucleoplasm	-	TAS	-
GO:0005737	cytoplasm	-	IDA	25190803
GO:0005737	cytoplasm	-	TAS	12711221
GO:0005794	Golgi apparatus	-	IDA	-
GO:0005829	cytosol	-	IDA	21030595
GO:0005876	spindle microtubule	-	IDA	18326024
GO:0005886	plasma membrane	-	IDA	-
GO:0017053	transcriptional repressor complex	-	IDA	11804585 12628926 16569215 18417529

KEGG ID	KEGG Term

Reactome ID	Reactome Term	Evidence
R-HSA-1257604	PIP3 activates AKT signaling	IEA
R-HSA-1266738	Developmental Biology	IEA
R-HSA-1266738	Developmental Biology	TAS
R-HSA-1368071	NR1D1 (REV-ERBA) represses gene expression	IEA
R-HSA-1430728	Metabolism	TAS
R-HSA-157118	Signaling by NOTCH	IEA
R-HSA-1592230	Mitochondrial biogenesis	TAS
R-HSA-162582	Signal Transduction	IEA
R-HSA-1643685	Disease	TAS
R-HSA-1852241	Organelle biogenesis and maintenance	TAS
R-HSA-193670	p75NTR negatively regulates cell cycle via SC1	IEA
R-HSA-193704	p75 NTR receptor-mediated signalling	IEA
R-HSA-1980143	Signaling by NOTCH1	IEA
R-HSA-1989781	PPARA activates gene expression	TAS
R-HSA-2122947	NOTCH1 Intracellular Domain Regulates Transcription	IEA
R-HSA-212436	Generic Transcription Pathway	IEA
R-HSA-2151201	Transcriptional activation of mitochondrial biogenesis	TAS
R-HSA-2644602	Signaling by NOTCH1 PEST Domain Mutants in Cancer	TAS
R-HSA-2644603	Signaling by NOTCH1 in Cancer	TAS
R-HSA-2644606	Constitutive Signaling by NOTCH1 PEST Domain Mutants	TAS
R-HSA-2894858	Signaling by NOTCH1 HD+PEST Domain Mutants in Cancer	TAS
R-HSA-2894862	Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants	TAS
R-HSA-3214815	HDACs deacetylate histones	TAS
R-HSA-3247509	Chromatin modifying enzymes	TAS
R-HSA-381340	Transcriptional regulation of white adipocyte differentiation	IEA
R-HSA-381340	Transcriptional regulation of white adipocyte differentiation	TAS
R-HSA-390466	Chaperonin-mediated protein folding	IEA
R-HSA-390471	Association of TriC/CCT with target proteins during biosynthesis	IEA
R-HSA-391251	Protein folding	IEA
R-HSA-392499	Metabolism of proteins	IEA
R-HSA-400206	Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha)	TAS
R-HSA-400253	Circadian Clock	TAS
R-HSA-400253	Circadian Clock	IEA
R-HSA-4839726	Chromatin organization	TAS
R-HSA-556833	Metabolism of lipids	TAS
R-HSA-5617472	Activation of anterior HOX genes in hindbrain development during early embryogenesis	IEA
R-HSA-5619507	Activation of HOX genes during differentiation	IEA
R-HSA-5663202	Diseases of signal transduction	TAS
R-HSA-6807070	PTEN Regulation	IEA
R-HSA-73857	RNA Polymerase II Transcription	IEA
R-HSA-73887	Death Receptor Signalling	IEA
R-HSA-74160	Gene expression (Transcription)	IEA
R-HSA-8878166	Transcriptional regulation by RUNX2	IEA
R-HSA-8940973	RUNX2 regulates osteoblast differentiation	IEA
R-HSA-8941326	RUNX2 regulates bone development	IEA
R-HSA-8943724	Regulation of PTEN gene transcription	IEA
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
29520058	Histone deacetylases mediate GABAA receptor expression, physiology, and behavioral maladaptations in rat models of alcohol dependence. (2018 Jun)	Bohnsack JP	Neuropsychopharmacology
20471694	Association of histone deacetylase genes with schizophrenia in Korean population. (2010 Jul 30)	Kim T	Psychiatry Res
24781734	Social isolation-induced epigenetic changes in midbrain of adult mice. (2014 Apr)	Siuda D	J Physiol Pharmacol
26745602	HDAC3 mediates smoking-induced pancreatic cancer. (2016 Feb 16)	Edderkaoui M	Oncotarget