Gene Page:CLDN3

Summary?
GeneID 1365
Symbol CLDN3
Synonyms C7orf1|CPE-R2|CPETR2|HRVP1|RVP1
Description claudin 3
Reference MIM:602910|HGNC:HGNC:2045|Ensembl:ENSG00000165215|HPRD:04219|Vega:OTTHUMG00000023424
Gene type protein-coding
Map location 7q11.23
Pascal p-value 0.352
Fetal beta -0.388
eGene Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene set Description Info
CNV:YES Copy number variation studies Manual curation
CV:PGCnp Genome-wide Association Study GWAS
GO_Annotation Mapping neuro-related keywords to Gene Ontology annotations Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs6687849 chr1 175904808 CLDN3 1365 0.1 trans
rs2502827 chr1 176044216 CLDN3 1365 0.06 trans
rs17572651 chr1 218943612 CLDN3 1365 0.09 trans
rs16829545 chr2 151977407 CLDN3 1365 5.92E-10 trans
rs7584986 chr2 184111432 CLDN3 1365 1.848E-5 trans
rs4575988 chr4 19984925 CLDN3 1365 0.18 trans
rs170776 chr4 173276735 CLDN3 1365 0.15 trans
rs1396222 chr4 173279496 CLDN3 1365 0.16 trans
rs335993 chr4 173321789 CLDN3 1365 0.13 trans
rs335980 chr4 173329784 CLDN3 1365 0.17 trans
rs17762315 chr5 76807576 CLDN3 1365 0.05 trans
rs10491487 chr5 80323367 CLDN3 1365 0.02 trans
rs1368303 chr5 147672388 CLDN3 1365 0.01 trans
rs6996695 chr8 77540580 CLDN3 1365 0.16 trans
rs10984951 chr9 123306781 CLDN3 1365 0.11 trans
rs4837782 chr9 123330812 CLDN3 1365 0.07 trans
rs10739568 chr9 123331138 CLDN3 1365 0.09 trans
rs17263352 chr9 124811572 CLDN3 1365 0.17 trans
rs457696 chr13 32581313 CLDN3 1365 0.03 trans
rs9566986 chr13 32595026 CLDN3 1365 0.07 trans
rs16955618 chr15 29937543 CLDN3 1365 4.549E-17 trans
rs17823633 chr17 68851458 CLDN3 1365 0.07 trans
rs17681878 chr18 34767223 CLDN3 1365 0.17 trans
rs749043 chr20 46995700 CLDN3 1365 0.03 trans

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
TPCN1 0.90 0.87
KANK1 0.87 0.83
FYCO1 0.86 0.87
KCNJ10 0.85 0.82
ACACB 0.85 0.83
ATP1A2 0.85 0.84
CHDH 0.84 0.80
SASH1 0.83 0.80
ITPKB 0.83 0.84
TPP1 0.83 0.84
Top 10 negatively co-expressed genes
Gene Pearson'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 function 去的术语 Evidence Neuro keywords PubMed ID
GO:0004888 transmembrane receptor activity TAS 9334247
GO:0005198 structural molecule activity IEA -
GO:0042802 identical protein binding ISS -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0001666 response to hypoxia IEP 15174142
GO:0016338 calcium-independent cell-cell adhesion ISS -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005923 tight junction ISS Brain (GO term level: 10) -
GO:0005886 plasma membrane IEA -
GO:0005887 integral to plasma membrane TAS 9334247
GO:0030054 cell junction IEA -

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 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
REACTOME CELL CELL COMMUNICATION 120 77 All SZGR 2.0 genes in this pathway
REACTOME CELL CELL JUNCTION ORGANIZATION 56 31 All SZGR 2.0 genes in this pathway
REACTOME TIGHT JUNCTION INTERACTIONS 29 11 All SZGR 2.0 genes in this pathway
REACTOME CELL JUNCTION ORGANIZATION 78 43 All SZGR 2.0 genes in this pathway
SCHUETZ乳腺癌导管侵入性的DN 84 53 All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL UP 450 256 All SZGR 2.0 genes in this pathway
RODRIGUES NTN1 TARGETS DN 158 102 All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY UP 430 232 All SZGR 2.0 genes in this pathway
多德鼻咽癌起来 1821 933 All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781 465 All SZGR 2.0 genes in this pathway
PROVENZANI METASTASIS DN 136 94 All SZGR 2.0 genes in this pathway
LANDIS BREAST CANCER PROGRESSION UP 44 27 All SZGR 2.0 genes in this pathway
CREIGHTON AKT1 SIGNALING VIA MTOR UP 34 22 All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP 552 347 All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION DN 234 147 All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND SERUM DEPRIVATION DN 84 54 All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 324 UP 150 93 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 UP 271 175 All SZGR 2.0 genes in this pathway
RICKMAN HEAD AND NECK CANCER A 100 63 All SZGR 2.0 genes in this pathway
LEI MYB TARGETS 318 215 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
IVANOVA HEMATOPOIESIS STEM CELL LONG TERM 302 191 All SZGR 2.0 genes in this pathway
RODWELL AGING KIDNEY NO BLOOD UP 222 139 All SZGR 2.0 genes in this pathway
RODWELL AGING KIDNEY UP 487 303 All SZGR 2.0 genes in this pathway
JIANG HYPOXIA NORMAL 311 205 All SZGR 2.0 genes in this pathway
SATO SILENCED BY METHYLATION IN PANCREATIC CANCER 1 419 273 All SZGR 2.0 genes in this pathway
WENG POR TARGETS LIVER UP 41 29 All SZGR 2.0 genes in this pathway
YEGNASUBRAMANIAN PROSTATE CANCER 128 60 All SZGR 2.0 genes in this pathway
STEIN ESRRA TARGETS DN 105 63 All SZGR 2.0 genes in this pathway
HELLER SILENCED BY METHYLATION UP 282 183 All SZGR 2.0 genes in this pathway
ACEVEDO NORMAL TISSUE ADJACENT TO LIVER TUMOR DN 354 216 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER DN 540 340 All SZGR 2.0 genes in this pathway
HUANG DASATINIB RESISTANCE DN 69 44 All SZGR 2.0 genes in this pathway
MALONEY RESPONSE TO 17AAG DN 79 45 All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP 1305 895 All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS UP 491 316 All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3 UNMETHYLATED 536 296 All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K27ME3 269 159 All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS POLYSOMY7 UP 79 50 All SZGR 2.0 genes in this pathway
STEIN ESRRA TARGETS 535 325 All SZGR 2.0 genes in this pathway
KOBAYASHI EGFR SIGNALING 24HR UP 101 65 All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 7 76 46 All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE UP 857 456 All SZGR 2.0 genes in this pathway
GREGORY SYNTHETIC LETHAL WITH IMATINIB 145 83 All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP A 898 516 All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP 745 475 All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS UP 682 433 All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL DN 428 246 All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839 928 All SZGR 2.0 genes in this pathway