TissGeneSummary for VTN |
Gene summary |
Basic gene information | Gene symbol | VTN |
Gene name | ||
Synonyms | ||
Cytomap | UCSC genome browser: | |
Type of gene | ||
RefGenes | ||
Description | ||
Modification date | ||
dbXrefs | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_VTN | |
BioGPS: 645832 | ||
Pathway | NCI Pathway Interaction Database: VTN | |
KEGG: VTN | ||
REACTOME: VTN | ||
Pathway Commons: VTN | ||
Context | iHOP: VTN | |
ligand binding site mutation search in PubMed: VTN | ||
UCL Cancer Institute: VTN | ||
Assigned class in TissGDB* | A | |
Included tissue-specific gene expression resources | HPA,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 VTN | Survival 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. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO term | PubMed ID |
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TissGeneExp for VTN |
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 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 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. |
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) |
- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
KIRC | -1.636421224 | 0.12224961 | -1.758670833 | 1.76E-06 | 4.42E-06 |
LUSC | -2.257978822 | 1.105460394 | -3.363439216 | 2.31E-23 | 4.16E-22 |
KICH | -3.80201639 | -0.64684439 | -3.155172 | 5.66E-08 | 2.71E-07 |
LUAD | -1.186114183 | 0.888115127 | -2.07422931 | 1.19E-13 | 1.04E-12 |
BLCA | -1.154363548 | 0.402231189 | -1.556594737 | 0.0111 | 0.04830998 |
PRAD | -2.011435006 | -0.942192698 | -1.069242308 | 0.0122 | 0.028931429 |
KIRP | -1.55720039 | 0.81931211 | -2.3765125 | 0.000192 | 0.000614071 |
LIHC | 11.96160361 | 12.98869561 | -1.027092 | 7.19E-05 | 0.000255913 |
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TissGene-miRNA for VTN |
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 type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
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TissGeneMut for VTN |
TissGeneSNV for VTN |
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. |
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) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.R450H | COAD | 2 |
p.G128A | THCA | 1 |
p.N253I | LIHC | 1 |
p.E294Q | SARC | 1 |
p.R176Q | UCEC | 1 |
p.R197Q | COAD | 1 |
p.P251L | UCEC | 1 |
p.D248N | COAD | 1 |
p.R383Q | SKCM | 1 |
p.Y265H | STAD | 1 |
p.S137* | BLCA | 1 |
p.A124V | STAD | 1 |
p.E154G | SKCM | 1 |
p.A348T | UCEC | 1 |
p.Q39H | PRAD | 1 |
p.A19D | BRCA | 1 |
p.G108E | SKCM | 1 |
p.D184G | PAAD | 1 |
p.L4M | STAD | 1 |
p.G170R | KIRC | 1 |
p.W339* | SKCM | 1 |
p.R389H | HNSC | 1 |
p.R370K | SKCM | 1 |
p.G81S | SARC | 1 |
p.E57K | BLCA | 1 |
p.S410N | STAD | 1 |
p.E154K | SKCM | 1 |
p.N253K | LUAD | 1 |
p.A349D | SARC | 1 |
p.E133D | HNSC | 1 |
p.P432T | ACC | 1 |
p.I9M | STAD | 1 |
p.C215S | LUAD | 1 |
p.R229H | STAD | 1 |
p.E126K | SKCM | 1 |
p.R241Q | COAD | 1 |
p.R362H | COAD | 1 |
p.R64C | LUAD | 1 |
p.P205H | SKCM | 1 |
p.E318K | STAD | 1 |
p.V271A | PAAD | 1 |
p.E185K | UCS | 1 |
p.E203K | LUAD | 1 |
p.D80N | SKCM | 1 |
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TissGeneCNV for VTN |
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) |
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TissGeneFusions for VTN |
Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
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TissGeneNet for VTN |
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) |
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TissGeneProg for VTN |
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. |
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. |
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. |
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. |
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TissGeneClin for VTN |
TissGeneDrug for VTN |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
DB00054 | Abciximab | Biotech | Approved |
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TissGeneDisease for VTN |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C1175175 | Severe Acute Respiratory Syndrome | 20 | BeFree |
umls:C0019163 | Hepatitis B | 14 | BeFree |
umls:C2239176 | Liver carcinoma | 6 | BeFree |
umls:C0027627 | Neoplasm Metastasis | 4 | BeFree |
umls:C0029925 | Ovarian Carcinoma | 4 | BeFree |
umls:C0678222 | Breast Carcinoma | 4 | BeFree |
umls:C0004153 | Atherosclerosis | 3 | BeFree |
umls:C0006142 | Malignant neoplasm of breast | 3 | BeFree |
umls:C0042769 | Virus Diseases | 3 | BeFree |
umls:C0242383 | Age related macular degeneration | 3 | BeFree,GAD |
umls:C1140680 | Malignant neoplasm of ovary | 3 | BeFree |
umls:C1260959 | Drusen | 3 | BeFree |
umls:C0003850 | Arteriosclerosis | 2 | BeFree |
umls:C0003873 | Rheumatoid Arthritis | 2 | BeFree |
umls:C0004114 | Astrocytoma | 2 | BeFree |
umls:C0017638 | Glioma | 2 | BeFree |
umls:C0019159 | Hepatitis A | 2 | BeFree |
umls:C0022116 | Ischemia | 2 | BeFree |
umls:C0023903 | Liver neoplasms | 2 | BeFree |
umls:C0025202 | melanoma | 2 | BeFree |
umls:C0235974 | Pancreatic carcinoma | 2 | BeFree |
umls:C0266999 | Vesicular Stomatitis | 2 | BeFree |
umls:C0919267 | ovarian neoplasm | 2 | BeFree,LHGDN |
umls:C1264606 | Persistent infection | 2 | BeFree |
umls:C1458155 | Mammary Neoplasms | 2 | BeFree,LHGDN |
umls:C3694279 | Middle East Respiratory Syndrome | 2 | BeFree |
umls:C0001418 | Adenocarcinoma | 1 | BeFree |
umls:C0004096 | Asthma | 1 | BeFree |
umls:C0007131 | Non-Small Cell Lung Carcinoma | 1 | BeFree |
umls:C0007134 | Renal Cell Carcinoma | 1 | BeFree |
umls:C0010276 | Craniopharyngioma | 1 | BeFree |
umls:C0010346 | Crohn Disease | 1 | CTD_human |
umls:C0011860 | Diabetes Mellitus, Non-Insulin-Dependent | 1 | BeFree |
umls:C0011881 | Diabetic Nephropathy | 1 | RGD |
umls:C0011884 | Diabetic Retinopathy | 1 | RGD |
umls:C0012739 | Disseminated Intravascular Coagulation | 1 | BeFree |
umls:C0014038 | Encephalitis | 1 | BeFree |
umls:C0014175 | Endometriosis | 1 | BeFree |
umls:C0017601 | Glaucoma | 1 | BeFree |
umls:C0017636 | Glioblastoma | 1 | BeFree |
umls:C0017662 | Glomerulonephritis, Membranoproliferative | 1 | BeFree |
umls:C0019158 | Hepatitis | 1 | BeFree |
umls:C0020538 | Hypertensive disease | 1 | BeFree |
umls:C0021368 | Inflammation | 1 | LHGDN |
umls:C0022735 | Klinefelter Syndrome | 1 | BeFree |
umls:C0023264 | Leigh Disease | 1 | BeFree |
umls:C0023418 | leukemia | 1 | BeFree |
umls:C0024117 | Chronic Obstructive Airway Disease | 1 | BeFree |
umls:C0024623 | Malignant neoplasm of stomach | 1 | BeFree |
umls:C0025007 | Measles | 1 | BeFree |
umls:C0027819 | Neuroblastoma | 1 | BeFree |
umls:C0029408 | Degenerative polyarthritis | 1 | BeFree |
umls:C0032002 | Pituitary Diseases | 1 | BeFree |
umls:C0032580 | Adenomatous Polyposis Coli | 1 | BeFree |
umls:C0033687 | Proteinuria | 1 | RGD |
umls:C0036429 | Sclerosis | 1 | LHGDN |
umls:C0036572 | Seizures | 1 | RGD |
umls:C0037773 | Spastic Paraplegia, Hereditary | 1 | BeFree |
umls:C0040015 | Thrombasthenia | 1 | BeFree |
umls:C0040028 | Thrombocythemia, Essential | 1 | BeFree |
umls:C0042373 | Vascular Diseases | 1 | BeFree |
umls:C0085110 | Severe Combined Immunodeficiency | 1 | BeFree |
umls:C0085620 | Flaccid paralysis | 1 | BeFree |
umls:C0085669 | Acute leukemia | 1 | BeFree |
umls:C0155626 | Acute myocardial infarction | 1 | BeFree |
umls:C0156181 | Peritoneal adhesion | 1 | BeFree |
umls:C0205698 | Undifferentiated carcinoma | 1 | BeFree |
umls:C0206062 | Lung Diseases, Interstitial | 1 | BeFree |
umls:C0206734 | Hemangioblastoma | 1 | BeFree |
umls:C0242666 | Protein S Deficiency | 1 | BeFree |
umls:C0266929 | Chronic Periodontitis | 1 | BeFree |
umls:C0268731 | Renal glomerular disease | 1 | BeFree |
umls:C0278883 | Metastatic melanoma | 1 | BeFree |
umls:C0334579 | Anaplastic astrocytoma | 1 | BeFree |
umls:C0346109 | Malignant Mesothelioma of Peritoneum | 1 | BeFree |
umls:C0346647 | Malignant neoplasm of pancreas | 1 | BeFree |
umls:C0376358 | Malignant neoplasm of prostate | 1 | BeFree |
umls:C0432474 | Klinefelter's syndrome - male with more than two X chromosomes | 1 | BeFree |
umls:C0524620 | Metabolic Syndrome X | 1 | BeFree |
umls:C0525045 | Mood Disorders | 1 | BeFree |
umls:C0549473 | Thyroid carcinoma | 1 | BeFree |
umls:C0553681 | Hypofibrinogenemia | 1 | BeFree |
umls:C0584960 | Factor V Leiden mutation | 1 | BeFree |
umls:C0596263 | Carcinogenesis | 1 | BeFree |
umls:C0600139 | Prostate carcinoma | 1 | BeFree |
umls:C0677886 | Epithelial ovarian cancer | 1 | BeFree |
umls:C0699791 | Stomach Carcinoma | 1 | BeFree |
umls:C0700095 | Central neuroblastoma | 1 | BeFree |
umls:C0729233 | Dissecting aneurysm of the thoracic aorta | 1 | BeFree |
umls:C0878500 | Intraepithelial Neoplasia | 1 | BeFree |
umls:C0948216 | Ovarian adenocarcinoma | 1 | BeFree |
umls:C1112211 | Hepatic infection | 1 | BeFree |
umls:C1168401 | Squamous cell carcinoma of the head and neck | 1 | BeFree |
umls:C1319315 | Adenocarcinoma of large intestine | 1 | BeFree |
umls:C1720452 | Soft drusen | 1 | BeFree |
umls:C1956346 | Coronary Artery Disease | 1 | LHGDN |