SZGR2

Summary ?

GeneID	1495
Symbol	CTNNA1
Synonyms	CAP102
Description	catenin alpha 1
Reference	MIM:116805\|HGNC:HGNC:2509\|Ensembl:ENSG00000044115\|HPRD:00285\|Vega:OTTHUMG00000163502
Gene type	protein-coding
Map location	5q31.2
Pascal p-value	0.586
Sherlock p-value	0.88
Fetal beta	0.146
DMG	1 (# studies)
eGene	Caudate basal ganglia Cerebellar Hemisphere Cerebellum Frontal Cortex BA9
Support	INTRACELLULAR SIGNAL TRANSDUCTION G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS CompositeSet Ascano FMRP targets

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Wockner_2014	Genome-wide DNA methylation analysis	This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24).	1
PMID:cooccur	High-throughput literature-search	Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
GSMA_I	Genome scan meta-analysis	Psr: 0.0032
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias	Click to show details
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg01873236	5	138088662	CTNNA1	2.563E-4	-0.406	0.038	DMG:Wockner_2014

Section II. Transcriptome annotation

General gene expression (GTEx)

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (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 the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
ADAMTS10	0.88	0.79
CNKSR1	0.88	0.80
LPAR2	0.88	0.76
HGFAC	0.88	0.78
MAMDC4	0.88	0.77
VWCE	0.87	0.78
ATAD3B	0.87	0.78
JMJD7-PLA2G4B	0.87	0.80
MICAL1	0.87	0.80
CCDC57	0.86	0.76

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
ABCG2	-0.54	-0.58
ITM2B	-0.53	-0.56
ACOT13	-0.52	-0.57
PLA2G4A	-0.52	-0.59
AF347015.31	-0.51	-0.61
AF347015.27	-0.51	-0.61
FAM162A	-0.51	-0.55
C5orf53	-0.50	-0.55
HLA-C	-0.50	-0.47
ALDOC	-0.50	-0.49

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IPI		12477722
GO:0005198	structural molecule activity	IEA		-
GO:0051015	actin filament binding	IEA		-
GO:0017166	vinculin binding	IPI		9700171
GO:0045296	cadherin binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007406	negative regulation of neuroblast proliferation	IEA	neurogenesis (GO term level: 10)	-
GO:0007155	cell adhesion	NAS		8323564
GO:0007163	establishment or maintenance of cell polarity	IEA		-
GO:0043066	negative regulation of apoptosis	IEA		-
GO:0043297	apical junction assembly	NAS		9700171
GO:0045880	positive regulation of smoothened signaling pathway	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005737	cytoplasm	IEA		-
GO:0030027	lamellipodium	IEA		-
GO:0005915	zonula adherens	IEA		-
GO:0005912	adherens junction	IEA		-
GO:0005886	plasma membrane	IEA		-
GO:0015629	actin cytoskeleton	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ACTN1	FLJ40884	actinin, alpha 1	-	HPRD,BioGRID	7790378
APC	BTPS2 \| DP2 \| DP2.5 \| DP3 \| GS	adenomatous polyposis coli	Affinity Capture-Western	BioGRID	7651399 \|8259519
CA9	CAIX \| MN	carbonic anhydrase IX	Affinity Capture-Western	BioGRID	14567991
CDH1	Arc-1 \| CD324 \| CDHE \| ECAD \| LCAM \| UVO	cadherin 1, type 1, E-cadherin (epithelial)	Affinity Capture-Western	BioGRID	7542250 \|8227214 \|9233779 \|10381631 \|11960376
CDH2	CD325 \| CDHN \| CDw325 \| NCAD	cadherin 2, type 1, N-cadherin (neuronal)	Affinity Capture-MS Affinity Capture-Western	BioGRID	12604612 \|14625392
CDH3	CDHP \| HJMD \| PCAD	cadherin 3, type 1, P-cadherin (placental)	Affinity Capture-Western Co-purification	BioGRID	10381631 \|10910767
CDH5	7B4 \| CD144 \| FLJ17376	cadherin 5, type 2 (vascular endothelium)	-	HPRD,BioGRID	12003790
CTNNA1	CAP102 \| FLJ36832	catenin (cadherin-associated protein), alpha 1, 102kDa	Affinity Capture-Western	BioGRID	9762469
CTNNB1	CTNNB \| DKFZp686D02253 \| FLJ25606 \| FLJ37923	catenin (cadherin-associated protein), beta 1, 88kDa	-	HPRD,BioGRID	7706414
CTNNB1	CTNNB \| DKFZp686D02253 \| FLJ25606 \| FLJ37923	catenin (cadherin-associated protein), beta 1, 88kDa	Beta-catenin interacts with alpha-catenin. This interaction was modelled on a demonstrated interaction between human beta-catenin and mouse alpha-catenin.	BIND	15294866
CTNND1	CAS \| CTNND \| KIAA0384 \| P120CAS \| P120CTN \| p120	catenin (cadherin-associated protein), delta 1	Affinity Capture-Western	BioGRID	7651399
DLG1	DKFZp761P0818 \| DKFZp781B0426 \| DLGH1 \| SAP97 \| dJ1061C18.1.1 \| hdlg	discs, large homolog 1 (Drosophila)	-	HPRD,BioGRID	9512503
FAM84B	BCMP101 \| NSE2	family with sequence similarity 84, member B	-	HPRD,BioGRID	12477722
JUB	Ajuba \| MGC15563	jub, ajuba homolog (Xenopus laevis)	-	HPRD	12417594
JUP	ARVD12 \| CTNNG \| DP3 \| DPIII \| PDGB \| PKGB	junction plakoglobin	-	HPRD,BioGRID	7650039 \|9110993
MLLT4	AF-6 \| AF6 \| AFADIN \| FLJ34371 \| RP3-431P23.3	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4	-	HPRD,BioGRID	11907041
MYO7A	DFNA11 \| DFNB2 \| MYOVIIA \| MYU7A \| NSRD2 \| USH1B	myosin VIIA	Affinity Capture-Western	BioGRID	11080149
PSEN1	AD3 \| FAD \| PS1 \| S182	presenilin 1	Affinity Capture-Western	BioGRID	10635315
PTPN14	MGC126803 \| PEZ \| PTP36	protein tyrosine phosphatase, non-receptor type 14	Affinity Capture-MS	BioGRID	12808048
SPTAN1	(ALPHA)II-SPECTRIN \| FLJ44613 \| NEAS	spectrin, alpha, non-erythrocytic 1 (alpha-fodrin)	-	HPRD	11069925
SPTBN1	ELF \| SPTB2 \| betaSpII	spectrin, beta, non-erythrocytic 1	Reconstituted Complex	BioGRID	11069925
TJP2	MGC26306 \| X104 \| ZO-2 \| ZO2	tight junction protein 2 (zona occludens 2)	-	HPRD,BioGRID	10026224
VCL	CMD1W \| MVCL	vinculin	-	HPRD,BioGRID	9700171
VEZT	DKFZp761C241 \| VEZATIN	vezatin, adherens junctions transmembrane protein	-	HPRD,BioGRID	11080149

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG ADHERENS JUNCTION	75	53	All SZGR 2.0 genes in this pathway
KEGG TIGHT JUNCTION	134	86	All SZGR 2.0 genes in this pathway
KEGG LEUKOCYTE TRANSENDOTHELIAL MIGRATION	118	78	All SZGR 2.0 genes in this pathway
KEGG PATHWAYS IN CANCER	328	259	All SZGR 2.0 genes in this pathway
KEGG ENDOMETRIAL CANCER	52	45	All SZGR 2.0 genes in this pathway
KEGG ARRHYTHMOGENIC RIGHT VENTRICULAR CARDIOMYOPATHY ARVC	76	59	All SZGR 2.0 genes in this pathway
BIOCARTA CELL2CELL PATHWAY	14	11	All SZGR 2.0 genes in this pathway
PID MET PATHWAY	80	60	All SZGR 2.0 genes in this pathway
PID ARF6 TRAFFICKING PATHWAY	49	34	All SZGR 2.0 genes in this pathway
PID NECTIN PATHWAY	30	20	All SZGR 2.0 genes in this pathway
PID CDC42 PATHWAY	70	51	All SZGR 2.0 genes in this pathway
PID AJDISS 2PATHWAY	48	38	All SZGR 2.0 genes in this pathway
PID ECADHERIN NASCENT AJ PATHWAY	39	33	All SZGR 2.0 genes in this pathway
PID ECADHERIN KERATINOCYTE PATHWAY	21	19	All SZGR 2.0 genes in this pathway
PID ECADHERIN STABILIZATION PATHWAY	42	34	All SZGR 2.0 genes in this pathway
PID VEGFR1 2 PATHWAY	69	57	All SZGR 2.0 genes in this pathway
PID NCADHERIN PATHWAY	33	32	All SZGR 2.0 genes in this pathway
PID RAC1 PATHWAY	54	37	All SZGR 2.0 genes in this pathway
REACTOME DEVELOPMENTAL BIOLOGY	396	292	All SZGR 2.0 genes in this pathway
REACTOME CELL CELL COMMUNICATION	120	77	All SZGR 2.0 genes in this pathway
REACTOME ADHERENS JUNCTIONS INTERACTIONS	27	20	All SZGR 2.0 genes in this pathway
REACTOME CELL CELL JUNCTION ORGANIZATION	56	31	All SZGR 2.0 genes in this pathway
REACTOME CELL JUNCTION ORGANIZATION	78	43	All SZGR 2.0 genes in this pathway
REACTOME MYOGENESIS	28	20	All SZGR 2.0 genes in this pathway
HOLLMANN APOPTOSIS VIA CD40 DN	267	178	All SZGR 2.0 genes in this pathway
GARY CD5 TARGETS UP	473	314	All SZGR 2.0 genes in this pathway
THUM SYSTOLIC HEART FAILURE UP	423	283	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP	1382	904	All SZGR 2.0 genes in this pathway
DEURIG T CELL PROLYMPHOCYTIC LEUKEMIA UP	368	234	All SZGR 2.0 genes in this pathway
WANG CLIM2 TARGETS UP	269	146	All SZGR 2.0 genes in this pathway
AKL HTLV1 INFECTION UP	27	16	All SZGR 2.0 genes in this pathway
SENESE HDAC1 TARGETS UP	457	269	All SZGR 2.0 genes in this pathway
SENESE HDAC1 AND HDAC2 TARGETS UP	238	144	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 12HR DN	209	122	All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP	1821	933	All SZGR 2.0 genes in this pathway
PROVENZANI METASTASIS DN	136	94	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN	485	334	All SZGR 2.0 genes in this pathway
OUELLET OVARIAN CANCER INVASIVE VS LMP UP	117	85	All SZGR 2.0 genes in this pathway
BARIS THYROID CANCER DN	59	45	All SZGR 2.0 genes in this pathway
WANG METHYLATED IN BREAST CANCER	35	25	All SZGR 2.0 genes in this pathway
KIM MYC AMPLIFICATION TARGETS DN	97	51	All SZGR 2.0 genes in this pathway
FALVELLA SMOKERS WITH LUNG CANCER	80	52	All SZGR 2.0 genes in this pathway
SHEN SMARCA2 TARGETS UP	424	268	All SZGR 2.0 genes in this pathway
BASSO B LYMPHOCYTE NETWORK	143	96	All SZGR 2.0 genes in this pathway
IIZUKA LIVER CANCER PROGRESSION L0 L1 DN	21	14	All SZGR 2.0 genes in this pathway
PENG GLUCOSE DEPRIVATION DN	169	112	All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT REJECTED VS OK DN	546	351	All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP	555	346	All SZGR 2.0 genes in this pathway
ALCALAY AML BY NPM1 LOCALIZATION UP	140	83	All SZGR 2.0 genes in this pathway
FAELT B CLL WITH VH3 21 DN	49	29	All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C8	72	56	All SZGR 2.0 genes in this pathway
WEIGEL OXIDATIVE STRESS BY TBH AND H2O2	36	24	All SZGR 2.0 genes in this pathway
KAAB FAILED HEART ATRIUM DN	141	99	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
LEE CALORIE RESTRICTION MUSCLE UP	43	33	All SZGR 2.0 genes in this pathway
VERRECCHIA RESPONSE TO TGFB1 C5	21	11	All SZGR 2.0 genes in this pathway
VERRECCHIA DELAYED RESPONSE TO TGFB1	39	26	All SZGR 2.0 genes in this pathway
LEE CALORIE RESTRICTION NEOCORTEX DN	88	58	All SZGR 2.0 genes in this pathway
HEDENFALK BREAST CANCER BRCA1 VS BRCA2	163	113	All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN	434	302	All SZGR 2.0 genes in this pathway
MITSIADES RESPONSE TO APLIDIN DN	249	165	All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA D CLUSTER DN	40	26	All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA D DN	78	34	All SZGR 2.0 genes in this pathway
GOLDRATH ANTIGEN RESPONSE	346	192	All SZGR 2.0 genes in this pathway
LINDSTEDT DENDRITIC CELL MATURATION C	69	49	All SZGR 2.0 genes in this pathway
RAY TARGETS OF P210 BCR ABL FUSION UP	18	13	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN	457	302	All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 4	31	17	All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 15	31	19	All SZGR 2.0 genes in this pathway
VALK AML WITH CEBPA	37	27	All SZGR 2.0 genes in this pathway
FONTAINE THYROID TUMOR UNCERTAIN MALIGNANCY UP	36	23	All SZGR 2.0 genes in this pathway
FONTAINE PAPILLARY THYROID CARCINOMA UP	66	38	All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA PCA3 DN	69	38	All SZGR 2.0 genes in this pathway
WONG EMBRYONIC STEM CELL CORE	335	193	All SZGR 2.0 genes in this pathway
WHITFIELD CELL CYCLE G2 M	216	124	All SZGR 2.0 genes in this pathway
LI INDUCED T TO NATURAL KILLER UP	307	182	All SZGR 2.0 genes in this pathway
LU EZH2 TARGETS DN	414	237	All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 NOT SATB1 UP	344	215	All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
miR-141/200a	717	723	m8	hsa-miR-141	UAACACUGUCUGGUAAAGAUGG
miR-141/200a	717	723	m8	hsa-miR-200a	UAACACUGUCUGGUAACGAUGU

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.

Gene Page: CTNNA1