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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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TissGeneSummary

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TissGeneExp

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TissGene-miRNA

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TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

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TissGeneNet

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TissGeneProg

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TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for CLDN1
check button Gene summary
Basic gene informationGene symbolCLDN1
Gene nameclaudin 1
SynonymsCLD1|ILVASC|SEMP1
CytomapUCSC genome browser: 3q28-q29
Type of geneprotein-coding
RefGenesNM_021101.4,
Descriptionclaudin-1senescence-associated epithelial membrane protein 1
Modification date20141207
dbXrefs MIM : 603718
HGNC : HGNC
Ensembl : ENSG00000163347
HPRD : 04760
Vega : OTTHUMG00000156214
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CLDN1
BioGPS: 9076
PathwayNCI Pathway Interaction Database: CLDN1
KEGG: CLDN1
REACTOME: CLDN1
Pathway Commons: CLDN1
ContextiHOP: CLDN1
ligand binding site mutation search in PubMed: CLDN1
UCL Cancer Institute: CLDN1
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesTiGER,GTExTiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)BladderSkin
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)BLCASKCM
Reference showing the relevant tissue of CLDN1
Description by TissGene annotationsCancer gene
Fused withOncogene
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C.

check button Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO termPubMed ID


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TissGeneExp for CLDN1

check button Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
gene exp


check button Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01)
gene isoform exp


check button Gene expressions across normal tissues of GTEx data
(GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct)
- Here, we shows the matched tissue types only among our 28 cancer types.
normal gene exp


check button Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
DEG exp

- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05)
Cancer typeMean(exp) in tumorMean(exp) in matched normalLog2FCP-val.FDR
LUSC4.9185132642.1347073822.7838058821.09E-114.51E-11
THCA4.7115708581.30482343.4067474585.29E-223.00E-20
COAD2.761835134-1.8750033274.6368384622.06E-222.26E-19
STAD2.936809894-0.4935744813.4303843753.46E-092.16E-07
KICH-0.7287814812.096710519-2.8254924.27E-082.09E-07
KIRP3.6921942691.6805567692.01163752.65E-061.22E-05
ESCA3.469659610.0278868833.4417727270.0003350.007384544
LIHC4.6902085195.701066519-1.0108580.0003960.001180558


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TissGene-miRNA for CLDN1

check button Significantly anti-correlated miRNAs of TissGene across 28 cancer types
(Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016)
(TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21)
(TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16)
(Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25))
Cancer typemiRNA idmiRNA accessionP-val.Coeff.# samples


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TissGeneMut for CLDN1
TissGeneSNV for CLDN1

check button nsSNV counts per each loci.
Different colors of circles represent different cancer types. Circle size denotes number of samples.
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)
* Click on the image to enlarge it in a new window.
SNV lollipop
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check button Somatic nucleotide variants of TissGene across 28 cancer types
(X-axis: cancer type and Y-axis: % of mutated samples)
The numbers in parentheses are numbers of samples with mutation (nsSNVs).
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)
SNV distribution

- nsSNVs sorted by frequency.
AAchangeCancer type# samples
p.E160KSKCM2
p.L174FSKCM1
p.V211MTHYM1
p.P151HTHYM1
p.P151TSARC1
p.L73VBLCA1
p.I95VLIHC1
p.A124TLUAD1
p.R188QSKCM1
p.A157VUCEC1
p.Q61*UCEC1
p.G17RSKCM1
p.G141DSKCM1
p.A124TSTAD1
p.V211LBLCA1
p.V100IACC1
p.A124TPRAD1
p.A124TLGG1
p.V211MUCEC1
p.A119VSKCM1
p.P196SBLCA1
p.G10RLUSC1
p.C54RSTAD1
p.M105TSTAD1


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TissGeneCNV for CLDN1

check button Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples)
(TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16)
CNV


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TissGeneFusions for CLDN1

check button Fusion genes including TissGene
(ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01)
DatabaseSrcCancer typeSampleFusion geneORF5'-gene BP3'-gene BP
Chimerdb3.0ChiTaRsNABG289620FADS1-CLDN1chr11:61569290chr3:190024204
Chimerdb3.0ChiTaRsNAAI133078CLDN1-C3chr3:190024282chr19:6717313
Chimerdb3.0ChiTaRsNABQ022914CLDN1-PARD3chr3:190025563chr10:35084174
Chimerdb3.0ChiTaRsNAR27501PARD3-CLDN1chr10:35084275chr3:190025441
Chimerdb3.0FusionScanLUSCTCGA-56-7223-01APPP1R2-CLDN1Out-of-Framechr3:195256594chr3:190030825
Chimerdb3.0FusionScanESCATCGA-LN-A4A2-01ALPP-CLDN1In-Framechr3:188124101chr3:190030825


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TissGeneNet for CLDN1

check button Co-expressed gene networks based on protein-protein interaction data (CePIN)
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(PINA2 ppi data)
BRCA (tumor)BRCA (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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COAD (tumor)COAD (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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HNSC (tumor)HNSC (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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KICH (tumor)KICH (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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KIRC (tumor)KIRC (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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KIRP (tumor)KIRP (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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LIHC (tumor)LIHC (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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LUAD (tumor)LUAD (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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LUSC (tumor)LUSC (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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PRAD (tumor)PRAD (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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STAD (tumor)STAD (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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THCA (tumor)THCA (normal)
CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (tumor)CLDN1, BRD4, MMP2, INADL, TJP2, LNX1, TJP1, MPDZ, TJP3, MMP14, DRG1, WNK4, CLDN3, CLDN5 (normal)
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TissGeneProg for CLDN1

check button Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)
* Click on the image to enlarge it in a new window.
survival 1

check button Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)
* Click on the image enlarge it in a new window.
survival 2

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)
* Click on the image enlarge it in a new window.
survival 3

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)
* Click on the image enlarge it in a new window.
survival 4

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TissGeneClin for CLDN1
TissGeneDrug for CLDN1

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status


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TissGeneDisease for CLDN1

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0006142Malignant neoplasm of breast15BeFree
umls:C0678222Breast Carcinoma15BeFree
umls:C0019196Hepatitis C13BeFree,LHGDN
umls:C0027627Neoplasm Metastasis13BeFree
umls:C0007102Malignant tumor of colon9BeFree
umls:C0596263Carcinogenesis8BeFree
umls:C0699790Colon Carcinoma8BeFree
umls:C1458155Mammary Neoplasms8BeFree,CTD_human,LHGDN
umls:C1527249Colorectal Cancer8BeFree
umls:C0009402Colorectal Carcinoma7BeFree
umls:C0007137Squamous cell carcinoma6BeFree,LHGDN
umls:C0178874Tumor Progression5BeFree
umls:C0001418Adenocarcinoma4BeFree,LHGDN
umls:C0024623Malignant neoplasm of stomach4BeFree
umls:C0029925Ovarian Carcinoma4BeFree
umls:C0042769Virus Diseases4BeFree
umls:C0699791Stomach Carcinoma4BeFree
umls:C1140680Malignant neoplasm of ovary4BeFree
umls:C1843355ICHTHYOSIS, LEUKOCYTE VACUOLES, ALOPECIA, AND SCLEROSING CHOLANGITIS4BeFree,CLINVAR,CTD_human,ORPHANET
umls:C2239176Liver carcinoma4BeFree,LHGDN
umls:C0009404Colorectal Neoplasms3LHGDN
umls:C0023903Liver neoplasms3BeFree
umls:C0686619Secondary malignant neoplasm of lymph node3BeFree
umls:C0007131Non-Small Cell Lung Carcinoma2BeFree
umls:C0009375Colonic Neoplasms2BeFree,LHGDN
umls:C0017636Glioblastoma2BeFree,LHGDN
umls:C0022104Irritable Bowel Syndrome2BeFree
umls:C0030297Pancreatic Neoplasm2LHGDN
umls:C0152013Adenocarcinoma of lung (disorder)2BeFree
umls:C0235974Pancreatic carcinoma2BeFree
umls:C0339273Corneal dystrophy, Lattice type 32BeFree
umls:C0346647Malignant neoplasm of pancreas2BeFree
umls:C0432306Ichthyosis Bullosa of Siemens2BeFree
umls:C0684249Carcinoma of lung2BeFree
umls:C1621958Glioblastoma Multiforme2BeFree
umls:C0001430Adenoma1LHGDN
umls:C0007095Carcinoid Tumor1LHGDN
umls:C0007124Noninfiltrating Intraductal Carcinoma1BeFree
umls:C0007621Neoplastic Cell Transformation1CTD_human
umls:C0008031Chest Pain1BeFree
umls:C0008313Cholangitis, Sclerosing1BeFree
umls:C0008370Cholestasis1BeFree
umls:C0008373Cholesteatoma1BeFree
umls:C0009324Ulcerative Colitis1BeFree
umls:C0011616Contact Dermatitis1BeFree,CTD_human
umls:C0012746Dissociative disorder1LHGDN
umls:C0014175Endometriosis1CTD_human
umls:C0014859Esophageal Neoplasms1BeFree,LHGDN
umls:C0017638Glioma1BeFree
umls:C0018922hemangiopericytoma1BeFree
umls:C0019693HIV Infections1BeFree
umls:C0020757Ichthyoses1BeFree
umls:C0020758Congenital ichthyosis1BeFree
umls:C0021390Inflammatory Bowel Diseases1LHGDN
umls:C0025286Meningioma1BeFree
umls:C0038356Stomach Neoplasms1BeFree
umls:C0040336Tobacco Use Disorder1GAD
umls:C0151546Oral Cavity Carcinoma1BeFree
umls:C0206624Hepatoblastoma1BeFree
umls:C0206687Carcinoma, Endometrioid1BeFree
umls:C0206692Carcinoma, Lobular1BeFree
umls:C0220641Lip and Oral Cavity Carcinoma1BeFree
umls:C0242379Malignant neoplasm of lung1BeFree
umls:C0267841Acalculous Cholecystitis1LHGDN
umls:C0338106Adenocarcinoma of colon1BeFree
umls:C0346153Breast Cancer, Familial1BeFree
umls:C0348898Irritable bowel syndrome with diarrhea1BeFree
umls:C0442874Neuropathy1BeFree
umls:C0521158Recurrent tumor1BeFree
umls:C0566602Primary sclerosing cholangitis1BeFree
umls:C0677055CARCINOMA OF VULVA1BeFree
umls:C0677886Epithelial ovarian cancer1BeFree
umls:C0850666Helicobacter pylori infection1BeFree
umls:C0919267ovarian neoplasm1BeFree
umls:C0948380Colorectal cancer metastatic1BeFree
umls:C1153706Endometrial adenocarcinoma1BeFree
umls:C1260325Dendritic Cell Sarcoma, Follicular1LHGDN
umls:C1290884Inflammatory disorder1BeFree
umls:C1336076Sporadic Breast Carcinoma1BeFree
umls:C1858051NORTH AMERICAN INDIAN CHILDHOOD CIRRHOSIS1BeFree
umls:C2004489Regurgitation1BeFree
umls:C2931822Nasopharyngeal carcinoma1BeFree
umls:C3539878Triple Negative Breast Neoplasms1BeFree
umls:C3714514Infection1LHGDN