SZGR2

Summary ?

GeneID	1000
Symbol	CDH2
Synonyms	CD325\|CDHN\|CDw325\|NCAD
Description	cadherin 2
Reference	MIM:114020\|HGNC:HGNC:1759\|Ensembl:ENSG00000170558\|HPRD:00226\|Vega:OTTHUMG00000059940
Gene type	protein-coding
Map location	18q11.2
Pascal p-value	0.97
Sherlock p-value	0.539
Fetal beta	0.8
DMG	1 (# studies)
eGene	Meta
Support	CELL ADHESION AND TRANSSYNAPTIC SIGNALING G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS G2Cdb.humanNRC CompositeSet Ascano FMRP targets Potential synaptic genes

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Jaffe_2016	Genome-wide DNA methylation analysis	This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05.	1
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.3081

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg15698842	18	25755641	CDH2	3.92E-8	-0.023	1.11E-5	DMG:Jaffe_2016

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
CNTNAP2	0.68	0.83
RAB3C	0.67	0.82
GPR137C	0.65	0.67
PGM2L1	0.63	0.69
YAF2	0.62	0.70
TCERG1L	0.62	0.72
EMID2	0.62	0.67
TBC1D9	0.62	0.73
RASGEF1B	0.62	0.65
PLEKHB2	0.62	0.81

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
GPRC5C	-0.37	-0.43
EFEMP2	-0.36	-0.42
EIF4EBP3	-0.35	-0.38
AQP5	-0.34	-0.38
FXYD1	-0.33	-0.30
MT-CO2	-0.32	-0.35
ROM1	-0.32	-0.30
AF347015.2	-0.32	-0.30
AF347015.26	-0.32	-0.29
AF347015.31	-0.32	-0.33

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005509	calcium ion binding	IEA		-
GO:0005515	protein binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007155	cell adhesion	TAS		2384753
GO:0007156	homophilic cell adhesion	IEA		-
GO:0016339	calcium-dependent cell-cell adhesion	IEA		-
GO:0016477	cell migration	IEA		-
GO:0048514	blood vessel morphogenesis	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0045202	synapse	IEA	neuron, Synap, Neurotransmitter, Glial (GO term level: 2)	-
GO:0016021	integral to membrane	IEA		-
GO:0030027	lamellipodium	IEA		-
GO:0005912	adherens junction	IEA		-
GO:0005886	plasma membrane	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ACTA1	ACTA \| ASMA \| CFTD \| CFTD1 \| CFTDM \| MPFD \| NEM1 \| NEM2 \| NEM3	actin, alpha 1, skeletal muscle	Affinity Capture-Western	BioGRID	12438242
ARVCF	FLJ35345	armadillo repeat gene deletes in velocardiofacial syndrome	-	HPRD	11058098
BOC	-	Boc homolog (mouse)	-	HPRD,BioGRID	12634428
CDH11	CAD11 \| CDHOB \| OB \| OSF-4	cadherin 11, type 2, OB-cadherin (osteoblast)	-	HPRD,BioGRID	14625392
CDH4	CAD4 \| FLJ22202 \| FLJ40547 \| MGC126700 \| MGC138355 \| RCAD	cadherin 4, type 1, R-cadherin (retinal)	-	HPRD,BioGRID	10662782
CDON	CDO \| MGC111524 \| ORCAM	Cdon homolog (mouse)	-	HPRD,BioGRID	12634428
CTNNA1	CAP102 \| FLJ36832	catenin (cadherin-associated protein), alpha 1, 102kDa	Affinity Capture-MS Affinity Capture-Western	BioGRID	12604612 \|14625392
CTNNB1	CTNNB \| DKFZp686D02253 \| FLJ25606 \| FLJ37923	catenin (cadherin-associated protein), beta 1, 88kDa	Affinity Capture-MS Affinity Capture-Western	BioGRID	12604612 \|14625392
CTNNB1	CTNNB \| DKFZp686D02253 \| FLJ25606 \| FLJ37923	catenin (cadherin-associated protein), beta 1, 88kDa	-	HPRD	12151522
CTNND1	CAS \| CTNND \| KIAA0384 \| P120CAS \| P120CTN \| p120	catenin (cadherin-associated protein), delta 1	Affinity Capture-MS Affinity Capture-Western	BioGRID	12604612 \|14625392
GNA12	MGC104623 \| MGC99644 \| NNX3 \| RMP \| gep	guanine nucleotide binding protein (G protein) alpha 12	-	HPRD,BioGRID	11136230
GNA13	G13 \| MGC46138	guanine nucleotide binding protein (G protein), alpha 13	-	HPRD,BioGRID	11136230
GRIK2	EAA4 \| GLR6 \| GLUK6 \| GLUR6 \| MGC74427 \| MRT6	glutamate receptor, ionotropic, kainate 2	-	HPRD	12151522
GRIN1	NMDA1 \| NMDAR1 \| NR1	glutamate receptor, ionotropic, N-methyl D-aspartate 1	-	HPRD	10862698
JUP	ARVD12 \| CTNNG \| DP3 \| DPIII \| PDGB \| PKGB	junction plakoglobin	-	HPRD	1639850
JUP	ARVD12 \| CTNNG \| DP3 \| DPIII \| PDGB \| PKGB	junction plakoglobin	Affinity Capture-MS Affinity Capture-Western	BioGRID	7650039 \|14625392
LRRC7	DKFZp686I1147 \| KIAA1365 \| MGC144918	leucine rich repeat containing 7	-	HPRD,BioGRID	11729199
PKP4	FLJ31261 \| FLJ42243 \| p0071	plakophilin 4	Two-hybrid	BioGRID	12615965
PTPN1	PTP1B	protein tyrosine phosphatase, non-receptor type 1	-	HPRD	12377785
RAB8B	FLJ38125	RAB8B, member RAS oncogene family	Affinity Capture-Western	BioGRID	12639940
RICS	GC-GAP \| GRIT \| KIAA0712 \| MGC1892 \| p200RhoGAP \| p250GAP	Rho GTPase-activating protein	-	HPRD	12531901

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG CELL ADHESION MOLECULES CAMS	134	93	All SZGR 2.0 genes in this pathway
KEGG ARRHYTHMOGENIC RIGHT VENTRICULAR CARDIOMYOPATHY ARVC	76	59	All SZGR 2.0 genes in this pathway
PID PTP1B PATHWAY	52	40	All SZGR 2.0 genes in this pathway
PID AJDISS 2PATHWAY	48	38	All SZGR 2.0 genes in this pathway
PID NCADHERIN PATHWAY	33	32	All SZGR 2.0 genes in this pathway
PID FGF PATHWAY	55	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
GAZDA DIAMOND BLACKFAN ANEMIA PROGENITOR DN	66	42	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA DN	116	79	All SZGR 2.0 genes in this pathway
HORIUCHI WTAP TARGETS DN	310	188	All SZGR 2.0 genes in this pathway
BOGNI TREATMENT RELATED MYELOID LEUKEMIA DN	33	19	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS UP	214	155	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC UP	722	443	All SZGR 2.0 genes in this pathway
COLDREN GEFITINIB RESISTANCE UP	85	57	All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER UP	443	294	All SZGR 2.0 genes in this pathway
MARKEY RB1 ACUTE LOF DN	228	137	All SZGR 2.0 genes in this pathway
HAMAI APOPTOSIS VIA TRAIL DN	186	107	All SZGR 2.0 genes in this pathway
TAKAYAMA BOUND BY AR	10	6	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 XPCS DN	88	71	All SZGR 2.0 genes in this pathway
LI CISPLATIN RESISTANCE UP	28	20	All SZGR 2.0 genes in this pathway
KORKOLA YOLK SAC TUMOR	62	33	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN	855	609	All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER DN	514	319	All SZGR 2.0 genes in this pathway
WATTEL AUTONOMOUS THYROID ADENOMA UP	73	47	All SZGR 2.0 genes in this pathway
CALVET IRINOTECAN SENSITIVE VS RESISTANT DN	5	5	All SZGR 2.0 genes in this pathway
KARAKAS TGFB1 SIGNALING	18	15	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR DN	428	306	All SZGR 2.0 genes in this pathway
GOTZMANN EPITHELIAL TO MESENCHYMAL TRANSITION UP	69	55	All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS	988	594	All SZGR 2.0 genes in this pathway
BENPORATH SOX2 TARGETS	734	436	All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 UP	256	159	All SZGR 2.0 genes in this pathway
JECHLINGER EPITHELIAL TO MESENCHYMAL TRANSITION UP	71	51	All SZGR 2.0 genes in this pathway
MANALO HYPOXIA UP	207	145	All SZGR 2.0 genes in this pathway
HSIAO LIVER SPECIFIC GENES	244	154	All SZGR 2.0 genes in this pathway
LI WILMS TUMOR VS FETAL KIDNEY 1 DN	163	115	All SZGR 2.0 genes in this pathway
PETROVA ENDOTHELIUM LYMPHATIC VS BLOOD DN	162	102	All SZGR 2.0 genes in this pathway
KANG IMMORTALIZED BY TERT DN	102	67	All SZGR 2.0 genes in this pathway
PETROVA PROX1 TARGETS DN	64	38	All SZGR 2.0 genes in this pathway
MCCLUNG DELTA FOSB TARGETS 8WK	47	38	All SZGR 2.0 genes in this pathway
WEIGEL OXIDATIVE STRESS BY HNE AND H2O2	39	29	All SZGR 2.0 genes in this pathway
MODY HIPPOCAMPUS NEONATAL	35	25	All SZGR 2.0 genes in this pathway
ZHANG PROLIFERATING VS QUIESCENT	51	41	All SZGR 2.0 genes in this pathway
KAAB HEART ATRIUM VS VENTRICLE DN	261	183	All SZGR 2.0 genes in this pathway
RAMPON ENRICHED LEARNING ENVIRONMENT LATE UP	22	16	All SZGR 2.0 genes in this pathway
GENTILE UV LOW DOSE DN	67	46	All SZGR 2.0 genes in this pathway
CLASPER LYMPHATIC VESSELS DURING METASTASIS DN	36	23	All SZGR 2.0 genes in this pathway
WALLACE PROSTATE CANCER RACE UP	299	167	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE DN	274	165	All SZGR 2.0 genes in this pathway
NADELLA PRKAR1A TARGETS DN	8	8	All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL UP	648	398	All SZGR 2.0 genes in this pathway
BOCHKIS FOXA2 TARGETS	425	261	All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL CULTURED VS FRESH UP	425	298	All SZGR 2.0 genes in this pathway
LABBE TARGETS OF TGFB1 AND WNT3A UP	111	70	All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN	546	362	All SZGR 2.0 genes in this pathway
ALONSO METASTASIS EMT UP	36	24	All SZGR 2.0 genes in this pathway
ALONSO METASTASIS UP	198	128	All SZGR 2.0 genes in this pathway
JIANG TIP30 TARGETS UP	46	28	All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA C D DN	252	155	All SZGR 2.0 genes in this pathway
HELLEBREKERS SILENCED DURING TUMOR ANGIOGENESIS	80	56	All SZGR 2.0 genes in this pathway
GU PDEF TARGETS UP	71	49	All SZGR 2.0 genes in this pathway
LINDSTEDT DENDRITIC CELL MATURATION D	68	44	All SZGR 2.0 genes in this pathway
HINATA NFKB TARGETS FIBROBLAST UP	84	60	All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS UP	395	249	All SZGR 2.0 genes in this pathway
YAGI AML WITH T 8 21 TRANSLOCATION	368	247	All SZGR 2.0 genes in this pathway
DANG REGULATED BY MYC DN	253	192	All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE	721	492	All SZGR 2.0 genes in this pathway
VERHAAK GLIOBLASTOMA CLASSICAL	162	122	All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 24HR DN	505	328	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS UP	504	321	All SZGR 2.0 genes in this pathway
PASINI SUZ12 TARGETS DN	315	215	All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 10HR DN	244	157	All SZGR 2.0 genes in this pathway
ABDELMOHSEN ELAVL4 TARGETS	16	13	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-124/506	239	245	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	239	245	m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-129-5p	976	982	1A	hsa-miR-129^brain	CUUUUUGCGGUCUGGGCUUGC
miR-129-5p	976	982	1A	hsa-miR-129-5p	CUUUUUGCGGUCUGGGCUUGCU
miR-144	170	176	m8	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-190	580	586	1A	hsa-miR-190	UGAUAUGUUUGAUAUAUUAGGU
miR-194	382	388	1A	hsa-miR-194	UGUAACAGCAACUCCAUGUGGA
miR-204/211	568	574	m8	hsa-miR-204^brain	UUCCCUUUGUCAUCCUAUGCCU
miR-204/211	568	574	m8	hsa-miR-211	UUCCCUUUGUCAUCCUUCGCCU
miR-208	642	648	1A	hsa-miR-208	AUAAGACGAGCAAAAAGCUUGU
miR-218	949	955	1A	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-221/222	593	599	1A	hsa-miR-221^brain	AGCUACAUUGUCUGCUGGGUUUC
miR-221/222	593	599	1A	hsa-miR-222^brain	AGCUACAUCUGGCUACUGGGUCUC
miR-26	202	208	1A	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	202	208	1A	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-320	1101	1107	m8	hsa-miR-320	AAAAGCUGGGUUGAGAGGGCGAA
miR-338	109	115	1A	hsa-miR-338^brain	UCCAGCAUCAGUGAUUUUGUUGA
miR-369-3p	766	772	m8	hsa-miR-369-3p	AAUAAUACAUGGUUGAUCUUU
miR-493-5p	484	490	m8	hsa-miR-493-5p	UUGUACAUGGUAGGCUUUCAUU
miR-493-5p	484	490	m8	hsa-miR-493-5p	UUGUACAUGGUAGGCUUUCAUU
miR-495	380	386	1A	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
miR-499	642	648	1A	hsa-miR-499	UUAAGACUUGCAGUGAUGUUUAA
miR-543	623	630	1A,m8	hsa-miR-543	AAACAUUCGCGGUGCACUUCU

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: CDH2