Gene Page:CDH5

Summary?
GeneID 1003
Symbol CDH5
Synonyms 7B4|CD144
Description cadherin 5
Reference MIM:601120|HGNC:HGNC:1764|Ensembl:ENSG00000179776|HPRD:03075|Vega:OTTHUMG00000137495
Gene type protein-coding
Map location 16q22.1
Pascal p-value 0.375
Fetal beta 0.043
eGene Meta
Support CELL ADHESION AND TRANSSYNAPTIC SIGNALING
CompositeSet

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DNM:Fromer_2014 Whole Exome Sequencing analysis This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
PMID:cooccur High-throughput literature-search 系统搜索PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
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: 2

Section I. Genetics and epigenetics annotation

@DNM table

Gene Chromosome Position Ref Alt Transcript AA change Mutation type Sift CG46 Trait Study
CDH5 chr16 66426075 A C NM_001795 p.336I>L missense Schizophrenia DNM:Fromer_2014


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
PPFIA2 0.79 0.81
R3HDM1 0.78 0.84
PVRL3 0.78 0.84
FGF14 0.78 0.80
TM6SF1 0.77 0.81
LRRC4C 0.76 0.81
JAZF1 0.76 0.81
ZNF540 0.76 0.78
L3MBTL4 0.76 0.80
GPR176 0.75 0.83
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
AC098691.2 -0.54 -0.59
MT-CO2 -0.54 -0.48
FXYD1 -0.53 -0.45
AF347015.21 -0.53 -0.45
AF347015.33 -0.52 -0.44
HIGD1B -0.52 -0.48
AC021016.1 -0.52 -0.49
AP002478.3 -0.52 -0.53
ACSF2 -0.51 -0.53
AF347015.8 -0.51 -0.45

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0005102 receptor binding 新闻学会 Neurotransmitter (GO term level: 4) 12088286
GO:0005509 calcium ion binding IEA -
GO:0005515 protein binding IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0001955 blood vessel maturation IEA -
GO:0007155 cell adhesion IEA -
GO:0007156 homophilic cell adhesion IEA -
GO:0007156 homophilic cell adhesion TAS 9219219
GO:0008285 negative regulation of cell proliferation IEA -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005923 tight junction IEA Brain (GO term level: 10) -
GO:0005624 membrane fraction TAS 9219219
GO:0016020 membrane IEA -
GO:0016021 integral to membrane IEA -
GO:0005886 plasma membrane TAS 9219219

Section IV. Protein-protein interaction annotation

Interactors Aliases B Official full name B Experimental Source PubMed ID
CSK MGC117393 c-src tyrosine kinase CDH5 (VE-cadherin) interacts with CSK. BIND 15861137
CTNNA1 CAP102 | FLJ36832 catenin (cadherin-associated protein), alpha 1, 102kDa - HPRD,BioGRID 12003790
CTNNB1 CTNNB | DKFZp686D02253 | FLJ25606 | FLJ37923 catenin (cadherin-associated protein), beta 1, 88kDa - HPRD 12413882
CTNNB1 CTNNB | DKFZp686D02253 | FLJ25606 | FLJ37923 catenin (cadherin-associated protein), beta 1, 88kDa Affinity Capture-Western BioGRID 9434630|12003790
CTNND1 中科院| CTNND | KIAA0384 | P120CAS | P120CTN | p120 catenin (cadherin-associated protein), delta 1 - HPRD,BioGRID 11855855
DSP DPI | DPII desmoplakin - HPRD,BioGRID 9739078
FGA Fib2 | MGC119422 | MGC119423 | MGC119425 fibrinogen alpha chain - HPRD,BioGRID 11900554
FGB MGC104327 | MGC120405 fibrinogen beta chain B-beta(15-42) interacts with CDH5 (VE-cadherin). BIND 15723073
JUP ARVD12 | CTNNG | DP3 | DPIII | PDGB | PKGB junction plakoglobin - HPRD 9739078|12003790
JUP ARVD12 | CTNNG | DP3 | DPIII | PDGB | PKGB junction plakoglobin Affinity Capture-Western BioGRID 9434630|12003790
KDR CD309 | FLK1 | VEGFR | VEGFR2 kinase insert domain receptor (a type III receptor tyrosine kinase) Affinity Capture-Western BioGRID 11950700
KDR CD309 | FLK1 | VEGFR | VEGFR2 kinase insert domain receptor (a type III receptor tyrosine kinase) - HPRD 10428027
P2RX4 P2X4 | P2X4R purinergic receptor P2X, ligand-gated ion channel, 4 Affinity Capture-Western BioGRID 12088286
P2RX6 MGC129625 | P2RXL1 | P2X6 | P2XM purinergic receptor P2X, ligand-gated ion channel, 6 - HPRD 12088286
PKP4 FLJ31261 | FLJ42243 | p0071 plakophilin 4 - HPRD,BioGRID 12426320
PKP4 FLJ31261 | FLJ42243 | p0071 plakophilin 4 p0071 interacts with VE-cadherin. BIND 12426320
PTPN11 BPTP3 | CFC | MGC14433 | NS1 | PTP-1D | PTP2C | SH-PTP2 | SH-PTP3 | SHP2 protein tyrosine phosphatase, non-receptor type 11 - HPRD,BioGRID 10681592
PTPRB DKFZp686E2262 | DKFZp686H15164 | FLJ44133 | HPTP-BETA | HPTPB | MGC142023 | MGC59935 | PTPB | R-PTP-BETA | VEPTP protein tyrosine phosphatase, receptor type, B Affinity Capture-Western
Biochemical Activity		 BioGRID 12234928
SHC1 FLJ26504 | SHC | SHCA SHC (Src homology 2 domain containing) transforming protein 1 - HPRD,BioGRID 11950700
SMG1 61E3.4 | ATX | KIAA0421 | LIP PI-3-kinase-related kinase SMG-1 - HPRD 10428027
VIM FLJ36605 vimentin - HPRD,BioGRID 12003790


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 LEUKOCYTE TRANSENDOTHELIAL MIGRATION 118 78 All SZGR 2.0 genes in this pathway
PID VEGFR1 2 PATHWAY 69 57 All SZGR 2.0 genes in this pathway
PID S1P S1P2 PATHWAY 24 19 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
PICCALUGA ANGIOIMMUNOBLASTIC LYMPHOMA UP 205 140 All SZGR 2.0 genes in this pathway
ROY WOUND BLOOD VESSEL UP 50 30 All SZGR 2.0 genes in this pathway
HORIUCHI WTAP TARGETS DN 310 188 All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION DN 234 147 All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 3 4WK UP 214 144 All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 4 5WK DN 196 131 All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL TGFB1 TARGETS DN 62 44 All SZGR 2.0 genes in this pathway
CALVET IRINOTECAN SENSITIVE VS REVERTED DN 5 5 All SZGR 2.0 genes in this pathway
LOPEZ MBD TARGETS 957 597 All SZGR 2.0 genes in this pathway
RANKIN ANGIOGENIC TARGETS OF VHL HIF2A DN 8 7 All SZGR 2.0 genes in this pathway
NING CHRONIC OBSTRUCTIVE PULMONARY DISEASE UP 157 105 All SZGR 2.0 genes in this pathway
GUO HEX TARGETS DN 65 36 All SZGR 2.0 genes in this pathway
LI WILMS TUMOR VS FETAL KIDNEY 1 UP 182 119 All SZGR 2.0 genes in this pathway
IGLESIAS E2F TARGETS UP 151 103 All SZGR 2.0 genes in this pathway
KUMAR TARGETS OF MLL AF9 FUSION 405 264 All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 DN 830 547 All SZGR 2.0 genes in this pathway
YAMAZAKI TCEB3 TARGETS UP 175 116 All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE UP 393 244 All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS DN 543 317 All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS DN 593 372 All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP 601 369 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP 973 570 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP 863 514 All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL DN 216 143 All SZGR 2.0 genes in this pathway
VART KSHV INFECTION ANGIOGENIC MARKERS DN 138 92 All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS DN 435 289 All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS UP 504 321 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-101 1566 1573 1A,m8 hsa-miR-101 UACAGUACUGUGAUAACUGAAG
miR-128 715 721 1A hsa-miR-128a UCACAGUGAACCGGUCUCUUUU
hsa-miR-128b UCACAGUGAACCGGUCUCUUUC
miR-143 1077 1083 1A hsa-miR-143brain UGAGAUGAAGCACUGUAGCUCA
miR-144 1567 1573 1A hsa-miR-144 UACAGUAUAGAUGAUGUACUAG
miR-27 715 722 1A,m8 hsa-miR-27abrain UUCACAGUGGCUAAGUUCCGC
hsa-miR-27bbrain UUCACAGUGGCUAAGUUCUGC