Gene info: ID 23316

Gene: CUX2

GENE ID: 23316

Synonyms: CDP2|CUTL2

Description: cut like homeobox 2

Gene type: protein-coding

Location: 12q24.11-q24.12

dbXrefs: Ensembl:ENSG00000111249 MIM:610648 Vega:OTTHUMG00000169546 UniprotKB:O14529

RefSeq: NG_023039.1

Retrived from: PubMed|SNP Mapped

SNPs: 3 ANCO-SNPs

Phenotype: ND|AD

# Publications: 1

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

Pascal p-value : 1.275e-1 (AD) 4.809e-1 (ND)

ANCO-SNPs

SNP ID	Position	Alleles	Trait	Variation Type
rs4766566	chr12:111269073 (GRCh38.p7)	C>T	alcohol dependence	SNV(Single Nucleotide Variation)
rs6490029	chr12:111260653 (GRCh38.p7)	G>A	alcohol dependence	SNV(Single Nucleotide Variation)
rs4766453	chr12:111254320 (GRCh38.p7)	C>T	alcohol dependence	SNV(Single Nucleotide Variation)

DNA Methylation

Probe	Locus(GRCh37)	Gene	Region	p-val	Trait	PubMed ID
cg14565408	chr12:111589389	CUX2	Gene body	3.051e-4	Alcohol use disorders	26763658
cg16235197	chr12:111758873	CUX2		3.000e-9	Maternal smoking in pregnancy	27040690
cg00029284	chr12:111731203	CUX2		2.330e-8	Maternal smoking in pregnancy	27040690
cg16235197	chr12:111758873	CUX2		5.190e-11	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
CDH22	0.894
PCDH8	0.884
MGAT5B	0.876
PIP5K1B	0.873
KCNQ4	0.863
VSTM2A	0.859
CBLN4	0.854
HAPLN4	0.853
CTXN3	0.852
FAM19A2	0.849

Top 10 negatively co-expressed genes

Gene Symbol	Pearson Correlation Coefficient
LAYN	-0.619
SGMS2	-0.618
TGFB3	-0.609
VRK2	-0.599
CTNNA3	-0.59
FAM107B	-0.585
SNHG18	-0.579
ACAP1	-0.578
WIPF1	-0.578
SH2D1A	-0.575

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 decreased expression of CUX2 mRNA"	28903501
C023035	3,4,5,3',4'-pentachlorobiphenyl	"3,4,5,3',4'-pentachlorobiphenyl results in decreased expression of CUX2 mRNA"	19692669
C459179	4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	"[NOG protein co-treated with trichostatin A co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in decreased expression of CUX2 mRNA"	27188386
C459179	4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	"[NOG protein co-treated with Valproic Acid co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in decreased expression of CUX2 mRNA"	27188386
C516138	(6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine	"[NOG protein co-treated with trichostatin A co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in decreased expression of CUX2 mRNA"	27188386
C516138	(6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine	"[NOG protein co-treated with Valproic Acid co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in decreased expression of CUX2 mRNA"	27188386
D000082	Acetaminophen	Acetaminophen results in decreased expression of CUX2 mRNA	29067470
D000111	Acetylcysteine	Acetylcysteine inhibits the reaction [[indole-3-carbinol co-treated with Diethylnitrosamine] results in increased expression of CUX2 mRNA]	22129741
D000111	Acetylcysteine	[indole-3-carbinol co-treated with Diethylnitrosamine co-treated with Acetylcysteine] results in decreased expression of CUX2 mRNA	22129741
D016604	Aflatoxin B1	Aflatoxin B1 affects the expression of CUX2 protein	20106945
D016604	Aflatoxin B1	Aflatoxin B1 results in decreased methylation of CUX2 gene	27153756
D013196	Dihydrotestosterone	Dihydrotestosterone results in decreased expression of CUX2 mRNA	17023530
D001151	Arsenic	Arsenic affects the methylation of CUX2 gene	25304211
D017638	Asbestos, Crocidolite	"Asbestos, Crocidolite results in decreased expression of CUX2 mRNA"	19446018
D001280	Atrazine	Atrazine results in decreased expression of CUX2 mRNA	25929836
D001280	Atrazine	Atrazine results in decreased expression of CUX2 mRNA	22378314
C547126	AZM551248	AZM551248 results in decreased expression of CUX2 mRNA	22323515
D001564	Benzo(a)pyrene	Benzo(a)pyrene results in decreased expression of CUX2 mRNA	20106945
D004958	Estradiol	[Progesterone co-treated with Estradiol] results in increased expression of CUX2 mRNA	17404688
C006780	bisphenol A	bisphenol A affects the methylation of CUX2 promoter	27334623
C006780	bisphenol A	[bisphenol A co-treated with Genistein] results in increased methylation of CUX2 gene	28505145
C006780	bisphenol A	bisphenol A results in increased methylation of CUX2 gene	28505145
D015124	8-Bromo Cyclic Adenosine Monophosphate	8-Bromo Cyclic Adenosine Monophosphate results in decreased expression of CUX2 mRNA	22079614
D002330	Carmustine	Carmustine affects the expression of CUX2 mRNA	19174181
D016572	Cyclosporine	Cyclosporine results in decreased expression of CUX2 mRNA	20106945\|2798913
D003976	Diazinon	Diazinon results in increased methylation of CUX2 gene	22964155
D003993	Dibutyl Phthalate	Dibutyl Phthalate results in increased expression of CUX2 mRNA	21266533
D004052	Diethylnitrosamine	Acetylcysteine inhibits the reaction [[indole-3-carbinol co-treated with Diethylnitrosamine] results in increased expression of CUX2 mRNA]	22129741
D004052	Diethylnitrosamine	[indole-3-carbinol co-treated with Diethylnitrosamine co-treated with Acetylcysteine] results in decreased expression of CUX2 mRNA	22129741
D004052	Diethylnitrosamine	[indole-3-carbinol co-treated with Diethylnitrosamine] results in increased expression of CUX2 mRNA	22129741
D004997	Ethinyl Estradiol	Ethinyl Estradiol results in increased expression of CUX2 mRNA	17942748
D004997	Ethinyl Estradiol	[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of CUX2 mRNA	17942748
D005038	Ethylnitrosourea	Ethylnitrosourea results in increased mutagenesis of CUX2 intron	27776689
D019833	Genistein	[bisphenol A co-treated with Genistein] results in increased methylation of CUX2 gene	28505145
D005839	Gentamicins	Gentamicins results in decreased expression of CUX2 mRNA	22061828
C016517	indole-3-carbinol	Acetylcysteine inhibits the reaction [[indole-3-carbinol co-treated with Diethylnitrosamine] results in increased expression of CUX2 mRNA]	22129741
C016517	indole-3-carbinol	indole-3-carbinol affects the expression of CUX2 mRNA	21396975
C016517	indole-3-carbinol	[indole-3-carbinol co-treated with Diethylnitrosamine co-treated with Acetylcysteine] results in decreased expression of CUX2 mRNA	22129741
C016517	indole-3-carbinol	[indole-3-carbinol co-treated with Diethylnitrosamine] results in increased expression of CUX2 mRNA	22129741
D007545	Isoproterenol	Isoproterenol results in decreased expression of CUX2 mRNA	20003209
C017461	lead nitrate	lead nitrate affects the reaction [CUX2 affects the expression of MT1 mRNA]	11891201
C017461	lead nitrate	lead nitrate affects the reaction [CUX2 affects the expression of MT2 mRNA]	11891201
D008070	Lipopolysaccharides	Lipopolysaccharides results in increased expression of CUX2 mRNA	12057914
D008752	Methylene Chloride	Methylene Chloride results in decreased expression of CUX2 mRNA	28392392
C004925	methylmercuric chloride	methylmercuric chloride results in decreased expression of CUX2 mRNA	28001369
D015655	1-Methyl-4-phenylpyridinium	1-Methyl-4-phenylpyridinium results in decreased expression of CUX2 mRNA	24810058
D009020	Morphine	Morphine results in increased expression of CUX2 mRNA	21178816
D009151	Mustard Gas	Mustard Gas results in increased expression of CUX2 mRNA	15674843
D037742	Nanotubes, Carbon	"Nanotubes, Carbon results in decreased expression of CUX2 mRNA"	25620056
D019829	Nevirapine	Nevirapine metabolite results in decreased expression of CUX2 mRNA	23947594
D010416	Pentachlorophenol	Pentachlorophenol results in increased expression of CUX2 mRNA	23892564
D010634	Phenobarbital	Phenobarbital affects the expression of CUX2 mRNA	19159669
C006253	pirinixic acid	[pirinixic acid binds to and results in increased activity of PPARA protein] which results in increased expression of CUX2 mRNA	19710929
C006253	pirinixic acid	pirinixic acid results in decreased expression of CUX2 mRNA	20813756\|2381119
D011374	Progesterone	[Progesterone co-treated with Estradiol] results in increased expression of CUX2 mRNA	17404688
D011374	Progesterone	Progesterone results in decreased expression of CUX2 mRNA	18070364
D011374	Progesterone	Progesterone results in increased expression of CUX2 mRNA	17404688
D011794	Quercetin	Quercetin results in increased expression of CUX2 mRNA	21565894
D015474	Isotretinoin	Isotretinoin results in decreased expression of CUX2 mRNA	20436886
D013629	Tamoxifen	Tamoxifen results in decreased expression of CUX2 mRNA	25123088
D013629	Tamoxifen	Tamoxifen results in increased expression of CUX2 mRNA	17555576
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin affects the expression of CUX2 mRNA	22298810
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin results in decreased expression of CUX2 mRNA	19692669\|2010694
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin affects the expression of CUX2 mRNA	28922406
D013749	Tetrachlorodibenzodioxin	[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of CUX2 mRNA	17942748
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin promotes the reaction [AHR protein binds to CUX2 promoter]	19654925
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin results in decreased expression of CUX2 mRNA	26290441
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin results in increased expression of CUX2 mRNA	21889950\|2405805
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin results in decreased expression of CUX2 mRNA	21215274
C012589	trichostatin A	"[NOG protein co-treated with trichostatin A co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in decreased expression of CUX2 mRNA"	27188386
C012589	trichostatin A	trichostatin A results in decreased expression of CUX2 mRNA	24935251\|2627250
C012589	trichostatin A	trichostatin A results in increased expression of CUX2 mRNA	24935251
D014635	Valproic Acid	"[NOG protein co-treated with Valproic Acid co-treated with (6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine co-treated with 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in decreased expression of CUX2 mRNA"	27188386
D014635	Valproic Acid	Valproic Acid affects the expression of CUX2 mRNA	25979313
D014635	Valproic Acid	Valproic Acid results in decreased expression of CUX2 mRNA	23179753\|2352703
D014635	Valproic Acid	Valproic Acid results in increased expression of CUX2 mRNA	23179753\|2493525
D014635	Valproic Acid	Valproic Acid affects the expression of CUX2 mRNA	17963808

GO/Pathway

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000977	RNA polymerase II regulatory region sequence-specific DNA binding	-	IBA	21873635
GO:0000977	RNA polymerase II regulatory region sequence-specific DNA binding	-	ISS	-
GO:0000978	RNA polymerase II proximal promoter sequence-specific DNA binding	-	IEA	-
GO:0000981	RNA polymerase II transcription factor activity, sequence-specific DNA binding	-	ISA	-
GO:0000981	RNA polymerase II transcription factor activity, sequence-specific DNA binding	-	ISM	19274049
GO:0000981	RNA polymerase II transcription factor activity, sequence-specific DNA binding	-	NAS	19274049
GO:0001078	transcriptional repressor activity, RNA polymerase II proximal promoter sequence-specific DNA binding	-	IEA	-
GO:0043565	sequence-specific DNA binding	-	IDA	15656993

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000122	negative regulation of transcription by RNA polymerase II	-	IBA	21873635
GO:0000122	negative regulation of transcription by RNA polymerase II	-	IDA	15656993
GO:0006351	transcription, DNA-templated	-	IEA	-
GO:0007614	short-term memory	-	ISS	-
GO:0010628	positive regulation of gene expression	-	ISS	-
GO:0048193	Golgi vesicle transport	-	IBA	21873635
GO:0050775	positive regulation of dendrite morphogenesis	-	ISS	-
GO:0050890	cognition	-	IMP	15389760
GO:0051965	positive regulation of synapse assembly	-	ISS	-
GO:0061003	positive regulation of dendritic spine morphogenesis	-	ISS	-
GO:0071310	cellular response to organic substance	-	IEA	-
GO:2000463	positive regulation of excitatory postsynaptic potential	-	ISS	-

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000139	Golgi membrane	-	IBA	21873635
GO:0005634	nucleus	-	IBA	21873635
GO:0005634	nucleus	-	IDA	15656993
GO:0070062	extracellular exosome	-	HDA	19056867

KEGG ID	KEGG Term

Reactome ID	Reactome Term	Evidence

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

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

PMID	Title (Year)	Author	Journal
21270382	Genome-wide association studies identify genetic loci related to alcohol consumption in Korean men. (2011 Apr)	Baik I	Am J Clin Nutr