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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 VTN
check button Gene summary
Basic gene informationGene symbolVTN
Gene name
Synonyms
CytomapUCSC genome browser:
Type of gene
RefGenes
Description
Modification date
dbXrefs
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_VTN
BioGPS: 645832
PathwayNCI Pathway Interaction Database: VTN
KEGG: VTN
REACTOME: VTN
Pathway Commons: VTN
ContextiHOP: VTN
ligand binding site mutation search in PubMed: VTN
UCL Cancer Institute: VTN
Assigned class in TissGDB*A
Included tissue-specific gene expression resourcesHPA,TiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)Liver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)LIHC
Reference showing the relevant tissue of VTNSurvival signals of hepatic stellate cells in liver regeneration are regulated by glycosylation changes in rat vitronectin, especially decreased sialylation. J Biol Chem. 2010 Jun 4;285(23):17301-9. doi: 10.1074/jbc.M109.077016. Epub 2010 Mar 24. (pmid:20335177)
go to article
Description by TissGene annotations
* 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 VTN

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
KIRC-1.6364212240.12224961-1.7586708331.76E-064.42E-06
LUSC-2.2579788221.105460394-3.3634392162.31E-234.16E-22
KICH-3.80201639-0.64684439-3.1551725.66E-082.71E-07
LUAD-1.1861141830.888115127-2.074229311.19E-131.04E-12
BLCA-1.1543635480.402231189-1.5565947370.01110.04830998
PRAD-2.011435006-0.942192698-1.0692423080.01220.028931429
KIRP-1.557200390.81931211-2.37651250.0001920.000614071
LIHC11.9616036112.98869561-1.0270927.19E-050.000255913


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TissGene-miRNA for VTN

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 VTN
TissGeneSNV for VTN

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.R450HCOAD2
p.G128ATHCA1
p.N253ILIHC1
p.E294QSARC1
p.R176QUCEC1
p.R197QCOAD1
p.P251LUCEC1
p.D248NCOAD1
p.R383QSKCM1
p.Y265HSTAD1
p.S137*BLCA1
p.A124VSTAD1
p.E154GSKCM1
p.A348TUCEC1
p.Q39HPRAD1
p.A19DBRCA1
p.G108ESKCM1
p.D184GPAAD1
p.L4MSTAD1
p.G170RKIRC1
p.W339*SKCM1
p.R389HHNSC1
p.R370KSKCM1
p.G81SSARC1
p.E57KBLCA1
p.S410NSTAD1
p.E154KSKCM1
p.N253KLUAD1
p.A349DSARC1
p.E133DHNSC1
p.P432TACC1
p.I9MSTAD1
p.C215SLUAD1
p.R229HSTAD1
p.E126KSKCM1
p.R241QCOAD1
p.R362HCOAD1
p.R64CLUAD1
p.P205HSKCM1
p.E318KSTAD1
p.V271APAAD1
p.E185KUCS1
p.E203KLUAD1
p.D80NSKCM1


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TissGeneCNV for VTN

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 VTN

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


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TissGeneNet for VTN

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)
VTN, CSNK2A1, RPL13A, PVR, ITGB6, CRADD, SERPINE1, FGF2, TGFB1, CBX1, IGFBP5, CKS2, PRKCB, SIX1, VEGFA, EGF, PLAUR, POMC, ADH5, ITGB8, ETV7 (tumor)VTN, CSNK2A1, PRKCG, PRKCA, ITGB6, CRADD, GEM, FGF2, TGFB1, CBX1, CKS2, KNG1, TNFRSF11B, TGFB2, SIX1, AMPH, EGF, PLAUR, ADH5, ITGB8, RHOXF1 (normal)
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COAD (tumor)COAD (normal)
VTN, RPL13A, PRDX4, PRKCA, ITGB6, CRADD, COPS5, GLUD1, PRKACA, SERPINE1, TGFB1, ITGB3, IGFBP5, CKS2, KNG1, PRKCB, FGG, AMPH, EGF, IGF2, ADH5 (tumor)VTN, PRKCG, CRADD, COPS5, PRKACA, GEM, SERPINE1, FGF2, TGFB1, ITGB3, IGFBP5, CKS2, TNFRSF11B, PRKCB, FGG, SIX1, AMPH, HGF, VEGFA, PLAUR, POMC (normal)
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HNSC (tumor)HNSC (normal)
VTN, CSNK2A1, PRDX4, PVR, PRKCA, GLUD1, SERPINE1, FGF2, TGFB1, ITGB3, CBX1, CKS2, KNG1, TNFRSF11B, PRKCB, FGG, AMPH, HGF, PLAUR, IGF2, ITGB8 (tumor)VTN, PRKCG, PRDX4, PRKCA, GEM, SERPINE1, FGF2, TGFB1, ITGB3, IGFBP5, ITGA8, KNG1, TNFRSF11B, PRKCB, FGG, TGFB2, AMPH, HGF, PLAUR, IGF2, ITGB8 (normal)
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KICH (tumor)KICH (normal)
VTN, RPL13A, PRKCA, CRADD, GLUD1, FGF2, TGFB1, ITGB3, CBX1, IGFBP5, CKS2, ITGA8, TNFRSF11B, PRKCB, FGG, AMPH, VEGFA, POMC, IGF2, ADH5, ITGB8 (tumor)VTN, CSNK2A1, RPL13A, PRDX4, PRKCA, ITGB6, CRADD, GLUD1, SERPINE1, FGF2, TGFB1, CBX1, KNG1, TNFRSF11B, PRKCB, TGFB2, HGF, VEGFA, EGF, PLAUR, IGF2 (normal)
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KIRC (tumor)KIRC (normal)
VTN, PRDX4, PRKCA, CRADD, GLUD1, FGF2, TGFB1, CBX1, IGFBP5, CKS2, ITGA8, TNFRSF11B, PRKCB, TGFB2, AMPH, HGF, VEGFA, POMC, IGF2, ADH5, ITGB8 (tumor)VTN, RPL13A, PRKCG, CRADD, GLUD1, PRKACA, GEM, SERPINE1, TGFB1, CKS2, ITGA8, KNG1, PRKCB, FGG, AMPH, VEGFA, EGF, PLAUR, POMC, IGF2, ADH5 (normal)
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KIRP (tumor)KIRP (normal)
VTN, PRDX4, PRKCA, CRADD, GLUD1, FGF2, TGFB1, ITGB3, CBX1, IGFBP5, CKS2, ITGA8, TNFRSF11B, AMPH, HGF, VEGFA, POMC, IGF2, ADH5, ITGB8, RHOXF1 (tumor)VTN, CSNK2A1, PRDX4, ITGB6, COPS5, GLUD1, SERPINE1, FGF2, CKS2, ITGA8, KNG1, TNFRSF11B, PRKCB, FGG, SIX1, AMPH, HGF, VEGFA, IGF2, ITGB8, RHOXF1 (normal)
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LIHC (tumor)LIHC (normal)
VTN, CSNK2A1, PRDX4, PVR, ITGB6, CRADD, GLUD1, PRKACA, GEM, TGFB1, ITGB3, IGFBP5, ITGA8, KNG1, TNFRSF11B, PRKCB, TGFB2, HGF, PLAUR, IGF2, ITGB8 (tumor)VTN, CSNK2A1, PVR, PRKCA, CRADD, GLUD1, GEM, FGF2, TGFB1, CBX1, IGFBP5, CKS2, ITGA8, KNG1, FGG, TGFB2, AMPH, PLAUR, IGF2, ADH5, ITGB8 (normal)
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LUAD (tumor)LUAD (normal)
VTN, RPL13A, PRDX4, PRKCA, GLUD1, PRKACA, SERPINE1, TGFB1, ITGB3, IGFBP5, KNG1, TNFRSF11B, PRKCB, SIX1, AMPH, VEGFA, EGF, IGF2, ITGB8, RHOXF1, ETV7 (tumor)VTN, CSNK2A1, PRKCG, PRKCA, CRADD, PRKACA, SERPINE1, FGF2, TGFB1, CBX1, ITGA8, KNG1, TNFRSF11B, PRKCB, FGG, SIX1, HGF, VEGFA, PLAUR, POMC, ITGB8 (normal)
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LUSC (tumor)LUSC (normal)
VTN, CSNK2A1, RPL13A, PRDX4, PVR, PRKCA, ITGB6, PRKACA, GEM, SERPINE1, CBX1, IGFBP5, FGG, SIX1, AMPH, VEGFA, PLAUR, IGF2, ADH5, ITGB8, RHOXF1 (tumor)VTN, CSNK2A1, RPL13A, PRDX4, PRKCA, GEM, SERPINE1, ITGB3, CBX1, ITGA8, KNG1, TNFRSF11B, PRKCB, FGG, TGFB2, SIX1, HGF, EGF, PLAUR, ADH5, ITGB8 (normal)
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PRAD (tumor)PRAD (normal)
VTN, CSNK2A1, PVR, CRADD, COPS5, GLUD1, PRKACA, TGFB1, ITGB3, CBX1, IGFBP5, ITGA8, KNG1, FGG, SIX1, AMPH, EGF, IGF2, ADH5, ITGB8, ETV7 (tumor)VTN, CSNK2A1, RPL13A, PRKCG, PRDX4, PVR, PRKCA, CRADD, GLUD1, PRKACA, TGFB1, KNG1, FGG, AMPH, EGF, POMC, IGF2, ADH5, ITGB8, RHOXF1, LACRT (normal)
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STAD (tumor)STAD (normal)
VTN, PRKCG, PRDX4, PVR, ITGB6, CRADD, GLUD1, TGFB1, CBX1, CKS2, TNFRSF11B, TGFB2, SIX1, AMPH, HGF, VEGFA, PLAUR, ADH5, ITGB8, RHOXF1, ETV7 (tumor)VTN, PRKCG, PRKCA, COPS5, PRKACA, FGF2, ITGB3, IGFBP5, CKS2, ITGA8, KNG1, TNFRSF11B, FGG, TGFB2, AMPH, HGF, PLAUR, POMC, IGF2, ITGB8, ETV7 (normal)
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THCA (tumor)THCA (normal)
VTN, CSNK2A1, RPL13A, PRKCG, PVR, CRADD, GEM, FGF2, TGFB1, ITGB3, CBX1, CKS2, PRKCB, FGG, TGFB2, SIX1, HGF, PLAUR, POMC, RHOXF1, ETV7 (tumor)VTN, CSNK2A1, RPL13A, PRKCG, PRDX4, PVR, PRKCA, GEM, FGF2, KNG1, TNFRSF11B, PRKCB, FGG, TGFB2, SIX1, HGF, EGF, PLAUR, POMC, IGF2, RHOXF1 (normal)
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TissGeneProg for VTN

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 VTN
TissGeneDrug for VTN

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status
DB00054AbciximabBiotechApproved


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TissGeneDisease for VTN

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C1175175Severe Acute Respiratory Syndrome20BeFree
umls:C0019163Hepatitis B14BeFree
umls:C2239176Liver carcinoma6BeFree
umls:C0027627Neoplasm Metastasis4BeFree
umls:C0029925Ovarian Carcinoma4BeFree
umls:C0678222Breast Carcinoma4BeFree
umls:C0004153Atherosclerosis3BeFree
umls:C0006142Malignant neoplasm of breast3BeFree
umls:C0042769Virus Diseases3BeFree
umls:C0242383Age related macular degeneration3BeFree,GAD
umls:C1140680Malignant neoplasm of ovary3BeFree
umls:C1260959Drusen3BeFree
umls:C0003850Arteriosclerosis2BeFree
umls:C0003873Rheumatoid Arthritis2BeFree
umls:C0004114Astrocytoma2BeFree
umls:C0017638Glioma2BeFree
umls:C0019159Hepatitis A2BeFree
umls:C0022116Ischemia2BeFree
umls:C0023903Liver neoplasms2BeFree
umls:C0025202melanoma2BeFree
umls:C0235974Pancreatic carcinoma2BeFree
umls:C0266999Vesicular Stomatitis2BeFree
umls:C0919267ovarian neoplasm2BeFree,LHGDN
umls:C1264606Persistent infection2BeFree
umls:C1458155Mammary Neoplasms2BeFree,LHGDN
umls:C3694279Middle East Respiratory Syndrome2BeFree
umls:C0001418Adenocarcinoma1BeFree
umls:C0004096Asthma1BeFree
umls:C0007131Non-Small Cell Lung Carcinoma1BeFree
umls:C0007134Renal Cell Carcinoma1BeFree
umls:C0010276Craniopharyngioma1BeFree
umls:C0010346Crohn Disease1CTD_human
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent1BeFree
umls:C0011881Diabetic Nephropathy1RGD
umls:C0011884Diabetic Retinopathy1RGD
umls:C0012739Disseminated Intravascular Coagulation1BeFree
umls:C0014038Encephalitis1BeFree
umls:C0014175Endometriosis1BeFree
umls:C0017601Glaucoma1BeFree
umls:C0017636Glioblastoma1BeFree
umls:C0017662Glomerulonephritis, Membranoproliferative1BeFree
umls:C0019158Hepatitis1BeFree
umls:C0020538Hypertensive disease1BeFree
umls:C0021368Inflammation1LHGDN
umls:C0022735Klinefelter Syndrome1BeFree
umls:C0023264Leigh Disease1BeFree
umls:C0023418leukemia1BeFree
umls:C0024117Chronic Obstructive Airway Disease1BeFree
umls:C0024623Malignant neoplasm of stomach1BeFree
umls:C0025007Measles1BeFree
umls:C0027819Neuroblastoma1BeFree
umls:C0029408Degenerative polyarthritis1BeFree
umls:C0032002Pituitary Diseases1BeFree
umls:C0032580Adenomatous Polyposis Coli1BeFree
umls:C0033687Proteinuria1RGD
umls:C0036429Sclerosis1LHGDN
umls:C0036572Seizures1RGD
umls:C0037773Spastic Paraplegia, Hereditary1BeFree
umls:C0040015Thrombasthenia1BeFree
umls:C0040028Thrombocythemia, Essential1BeFree
umls:C0042373Vascular Diseases1BeFree
umls:C0085110Severe Combined Immunodeficiency1BeFree
umls:C0085620Flaccid paralysis1BeFree
umls:C0085669Acute leukemia1BeFree
umls:C0155626Acute myocardial infarction1BeFree
umls:C0156181Peritoneal adhesion1BeFree
umls:C0205698Undifferentiated carcinoma1BeFree
umls:C0206062Lung Diseases, Interstitial1BeFree
umls:C0206734Hemangioblastoma1BeFree
umls:C0242666Protein S Deficiency1BeFree
umls:C0266929Chronic Periodontitis1BeFree
umls:C0268731Renal glomerular disease1BeFree
umls:C0278883Metastatic melanoma1BeFree
umls:C0334579Anaplastic astrocytoma1BeFree
umls:C0346109Malignant Mesothelioma of Peritoneum1BeFree
umls:C0346647Malignant neoplasm of pancreas1BeFree
umls:C0376358Malignant neoplasm of prostate1BeFree
umls:C0432474Klinefelter's syndrome - male with more than two X chromosomes1BeFree
umls:C0524620Metabolic Syndrome X1BeFree
umls:C0525045Mood Disorders1BeFree
umls:C0549473Thyroid carcinoma1BeFree
umls:C0553681Hypofibrinogenemia1BeFree
umls:C0584960Factor V Leiden mutation1BeFree
umls:C0596263Carcinogenesis1BeFree
umls:C0600139Prostate carcinoma1BeFree
umls:C0677886Epithelial ovarian cancer1BeFree
umls:C0699791Stomach Carcinoma1BeFree
umls:C0700095Central neuroblastoma1BeFree
umls:C0729233Dissecting aneurysm of the thoracic aorta1BeFree
umls:C0878500Intraepithelial Neoplasia1BeFree
umls:C0948216Ovarian adenocarcinoma1BeFree
umls:C1112211Hepatic infection1BeFree
umls:C1168401Squamous cell carcinoma of the head and neck1BeFree
umls:C1319315Adenocarcinoma of large intestine1BeFree
umls:C1720452Soft drusen1BeFree
umls:C1956346Coronary Artery Disease1LHGDN