Gene Page: CLDN3

Summary ?
GeneID1365
SymbolCLDN3
SynonymsC7orf1|CPE-R2|CPETR2|HRVP1|RVP1
Descriptionclaudin 3
ReferenceMIM:602910|HGNC:HGNC:2045|Ensembl:ENSG00000165215|HPRD:04219|Vega:OTTHUMG00000023424
Gene typeprotein-coding
Map location7q11.23
Pascal p-value0.352
Fetal beta-0.388
eGeneMyers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CNV:YESCopy number variation studiesManual curation
CV:PGCnpGenome-wide Association StudyGWAS
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 1 

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs6687849chr1175904808CLDN313650.1trans
rs2502827chr1176044216CLDN313650.06trans
rs17572651chr1218943612CLDN313650.09trans
rs16829545chr2151977407CLDN313655.92E-10trans
rs7584986chr2184111432CLDN313651.848E-5trans
rs4575988chr419984925CLDN313650.18trans
rs170776chr4173276735CLDN313650.15trans
rs1396222chr4173279496CLDN313650.16trans
rs335993chr4173321789CLDN313650.13trans
rs335980chr4173329784CLDN313650.17trans
rs17762315chr576807576CLDN313650.05trans
rs10491487chr580323367CLDN313650.02trans
rs1368303chr5147672388CLDN313650.01trans
rs6996695chr877540580CLDN313650.16trans
rs10984951chr9123306781CLDN313650.11trans
rs4837782chr9123330812CLDN313650.07trans
rs10739568chr9123331138CLDN313650.09trans
rs17263352chr9124811572CLDN313650.17trans
rs457696chr1332581313CLDN313650.03trans
rs9566986chr1332595026CLDN313650.07trans
rs16955618chr1529937543CLDN313654.549E-17trans
rs17823633chr1768851458CLDN313650.07trans
rs17681878chr1834767223CLDN313650.17trans
rs749043chr2046995700CLDN313650.03trans

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
GenePearson's Correlation Spearman's Correlation
TPCN10.900.87
KANK10.870.83
FYCO10.860.87
KCNJ100.850.82
ACACB0.850.83
ATP1A20.850.84
CHDH0.840.80
SASH10.830.80
ITPKB0.830.84
TPP10.830.84
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MED19-0.52-0.55
POLB-0.52-0.55
RPS3AP47-0.49-0.63
NR2C2AP-0.49-0.51
STMN1-0.49-0.48
FRG1-0.49-0.54
RPL24-0.48-0.64
COMMD3-0.48-0.53
ALKBH2-0.48-0.53
RPL27-0.48-0.63

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0004888transmembrane receptor activityTAS9334247 
GO:0005198structural molecule activityIEA-
GO:0042802identical protein bindingISS-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0001666response to hypoxiaIEP15174142 
GO:0016338calcium-independent cell-cell adhesionISS-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005923tight junctionISSBrain (GO term level: 10)-
GO:0005886plasma membraneIEA-
GO:0005887integral to plasma membraneTAS9334247 
GO:0030054cell junctionIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG CELL ADHESION MOLECULES CAMS 13493All SZGR 2.0 genes in this pathway
KEGG TIGHT JUNCTION 13486All SZGR 2.0 genes in this pathway
KEGG LEUKOCYTE TRANSENDOTHELIAL MIGRATION 11878All SZGR 2.0 genes in this pathway
REACTOME CELL CELL COMMUNICATION 12077All SZGR 2.0 genes in this pathway
REACTOME CELL CELL JUNCTION ORGANIZATION 5631All SZGR 2.0 genes in this pathway
REACTOME TIGHT JUNCTION INTERACTIONS 2911All SZGR 2.0 genes in this pathway
REACTOME CELL JUNCTION ORGANIZATION 7843All SZGR 2.0 genes in this pathway
SCHUETZ BREAST CANCER DUCTAL INVASIVE DN 8453All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL UP 450256All SZGR 2.0 genes in this pathway
RODRIGUES NTN1 TARGETS DN 158102All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY UP 430232All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821933All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781465All SZGR 2.0 genes in this pathway
PROVENZANI METASTASIS DN 13694All SZGR 2.0 genes in this pathway
LANDIS BREAST CANCER PROGRESSION UP 4427All SZGR 2.0 genes in this pathway
CREIGHTON AKT1 SIGNALING VIA MTOR UP 3422All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP 552347All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION DN 234147All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND SERUM DEPRIVATION DN 8454All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 324 UP 15093All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 3 4WK UP 214144All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 4 5WK UP 271175All SZGR 2.0 genes in this pathway
RICKMAN HEAD AND NECK CANCER A 10063All SZGR 2.0 genes in this pathway
LEI MYB TARGETS 318215All SZGR 2.0 genes in this pathway
LI WILMS TUMOR VS FETAL KIDNEY 1 UP 182119All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL LONG TERM 302191All SZGR 2.0 genes in this pathway
RODWELL AGING KIDNEY NO BLOOD UP 222139All SZGR 2.0 genes in this pathway
RODWELL AGING KIDNEY UP 487303All SZGR 2.0 genes in this pathway
JIANG HYPOXIA NORMAL 311205All SZGR 2.0 genes in this pathway
SATO SILENCED BY METHYLATION IN PANCREATIC CANCER 1 419273All SZGR 2.0 genes in this pathway
WENG POR TARGETS LIVER UP 4129All SZGR 2.0 genes in this pathway
YEGNASUBRAMANIAN PROSTATE CANCER 12860All SZGR 2.0 genes in this pathway
STEIN ESRRA TARGETS DN 10563All SZGR 2.0 genes in this pathway
HELLER SILENCED BY METHYLATION UP 282183All SZGR 2.0 genes in this pathway
ACEVEDO NORMAL TISSUE ADJACENT TO LIVER TUMOR DN 354216All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER DN 540340All SZGR 2.0 genes in this pathway
HUANG DASATINIB RESISTANCE DN 6944All SZGR 2.0 genes in this pathway
MALONEY RESPONSE TO 17AAG DN 7945All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP 1305895All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS UP 491316All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3 UNMETHYLATED 536296All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K27ME3 269159All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS POLYSOMY7 UP 7950All SZGR 2.0 genes in this pathway
STEIN ESRRA TARGETS 535325All SZGR 2.0 genes in this pathway
KOBAYASHI EGFR SIGNALING 24HR UP 10165All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 7 7646All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE UP 857456All SZGR 2.0 genes in this pathway
GREGORY SYNTHETIC LETHAL WITH IMATINIB 14583All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP A 898516All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP 745475All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS UP 682433All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL DN 428246All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839928All SZGR 2.0 genes in this pathway