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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 ITGB6
check button Gene summary
Basic gene informationGene symbolITGB6
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_ITGB6
BioGPS: 100505984
PathwayNCI Pathway Interaction Database: ITGB6
KEGG: ITGB6
REACTOME: ITGB6
Pathway Commons: ITGB6
ContextiHOP: ITGB6
ligand binding site mutation search in PubMed: ITGB6
UCL Cancer Institute: ITGB6
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesTiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)KidneyPancreas
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)KIRC,KIRP,KICHPAAD
Reference showing the relevant tissue of ITGB6
Description by TissGene annotationsRisk TissGene in OS
Protective TissGene in OS
Risk TissGene in RFS
Protective TissGene in RFS
Fused withOncogene
Fused withTSGene
* 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 ITGB6

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
LUSC4.0370459295.60574985-1.5687039229.82E-103.36E-09
KICH2.0530927524.666760752-2.6136683.23E-081.60E-07
PRAD0.9364855212.519693214-1.5832076921.58E-071.41E-06
KIRC1.6209936414.50180753-2.8808138891.97E-181.34E-17


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TissGene-miRNA for ITGB6

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 ITGB6
TissGeneSNV for ITGB6

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.R739CSKCM2
p.R749QSKCM2
p.H336YSKCM2
p.H402NTHYM1
p.R739STHYM1
p.V419MPRAD1
p.N195KESCA1
p.E376QKIRC1
p.D148NBLCA1
p.S53CLUAD1
p.I327MBLCA1
p.C604YPRAD1
p.V545MSTAD1
p.R222ICHOL1
p.G385ESKCM1
p.A392TACC1
p.D296NUCEC1
p.G358RLGG1
p.A105VCOAD1
p.R259QSTAD1
p.D738GLGG1
p.R594HCOAD1
p.Q314RLUAD1
p.E677*UCEC1
p.E586KLUAD1
p.T50IHNSC1
p.Q95HSTAD1
p.G723RUCEC1
p.T605PSKCM1
p.V725IPAAD1
p.D271NSKCM1
p.S297IPAAD1
p.A637VBRCA1
p.R739HPRAD1
p.G22SLIHC1
p.E374KBLCA1
p.S144FSKCM1
p.G26RSKCM1
p.G175RMESO1
p.G477WPRAD1
p.H51YLUSC1
p.C649YBLCA1
p.C702FLUAD1
p.Y762CCOAD1
p.L65FLIHC1
p.R126HLIHC1
p.A249VPRAD1
p.K404NBRCA1
p.H402QOV1
p.C7*LUAD1
p.L353FLGG1
p.L497MLGG1
p.G723RCESC1
p.P703SLUAD1
p.I523VOV1
p.H51YBLCA1
p.E240KCOAD1
p.S510FSKCM1
p.L497PCOAD1
p.E57KREAD1
p.E4KLUAD1
p.G2RSKCM1
p.L90HCOAD1
p.R777KSKCM1
p.S274CLUAD1
p.S765FBLCA1
p.D442NSKCM1
p.Q107*HNSC1
p.C197YCOAD1
p.S585PUCEC1
p.C517*ESCA1
p.V324MGBM1
p.I200VESCA1
p.L172PSTAD1
p.S373CBLCA1
p.S274CCESC1
p.I232MUCEC1
p.S80FSKCM1
p.G385RSKCM1
p.C252FLUAD1
p.A143TSTAD1
p.L307FCOAD1
p.R749QBLCA1
p.E240KLGG1
p.C59YLGG1
p.E459XCOAD1
p.C394YHNSC1
p.K691NREAD1
p.P39LESCA1
p.S274FHNSC1
p.L85IUCEC1
p.M712TGBM1
p.Q640ESARC1
p.E748QLUAD1
p.R642QLGG1
p.R222IUCEC1
p.I729SUCEC1


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TissGeneCNV for ITGB6

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 ITGB6

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
Chimerdb3.0FusionScanESCATCGA-L5-A8NE-01ABAZ2B-ITGB65'UTR-CDSchr2:160472752chr2:161030650
Chimerdb3.0TopHat-FusionBRCATCGA-C8-A26W-01AITGB6-BAZ2BCDS-5'UTRchr2:160964189chr2:160335231
Chimerdb3.0TopHat-FusionBRCATCGA-D8-A1XK-01AITGB6-RBMS1In-Framechr2:161030484chr2:161159997
TCGAfusionPortalPRADABLCATCGA-BT-A20W-01AITGB6-RBMS1In-frameChr2:161051880Chr2:161174738
TCGAfusionPortalPRADABLCATCGA-DK-A2I6-01AITGB6-RBMS1In-frameChr2:160964190Chr2:161141555
TCGAfusionPortalPRADABRCATCGA-D8-A1XK-01AITGB6-RBMS1In-frameChr2:161030485Chr2:161159998
TCGAfusionPortalPRADABRCATCGA-E2-A14Z-01ASTK39-ITGB6In-frameChr2:168921829Chr2:160994710
TCGAfusionPortalPRADAHNSCTCGA-CR-7370-01APLA2R1-ITGB6In-frameChr2:160832579Chr2:160998582


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TissGeneNet for ITGB6

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)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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COAD (tumor)COAD (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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HNSC (tumor)HNSC (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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KICH (tumor)KICH (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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KIRC (tumor)KIRC (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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KIRP (tumor)KIRP (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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LIHC (tumor)LIHC (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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LUAD (tumor)LUAD (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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LUSC (tumor)LUSC (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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PRAD (tumor)PRAD (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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STAD (tumor)STAD (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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THCA (tumor)THCA (normal)
ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (tumor)ITGB6, FLNB, MAPK1, FN1, FLNA, ITGAV, TGFB1, FHL2, VTN (normal)
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TissGeneProg for ITGB6

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 ITGB6
TissGeneDrug for ITGB6

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 ITGB6

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0034067Pulmonary Emphysema3BeFree,CTD_human
umls:C0002452Amelogenesis Imperfecta2BeFree
umls:C0007137Squamous cell carcinoma2BeFree,LHGDN
umls:C0009375Colonic Neoplasms2BeFree,LHGDN
umls:C0023893Liver Cirrhosis, Experimental2CTD_human,RGD
umls:C0038454Cerebrovascular accident2GAD
umls:C4015557AMELOGENESIS IMPERFECTA, TYPE IH2UNIPROT
umls:C0000768Congenital Abnormality1BeFree
umls:C0000786Spontaneous abortion1CTD_human
umls:C0006142Malignant neoplasm of breast1BeFree
umls:C0007102Malignant tumor of colon1BeFree
umls:C0007786Brain Ischemia1GAD
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent1GAD
umls:C0017638Glioma1BeFree
umls:C0023895Liver diseases1CTD_human
umls:C0034063Pulmonary Edema1BeFree
umls:C0524910Hepatitis C, Chronic1CTD_human
umls:C0678222Breast Carcinoma1BeFree
umls:C0699790Colon Carcinoma1BeFree
umls:C0746102Chronic lung disease1BeFree
umls:C0796085Nance-Horan syndrome1BeFree
umls:C1271104Blood pressure finding1GAD
umls:C1272641Systemic arterial pressure1GAD
umls:C0399376Amelogenesis Imperfecta, Type III0ORPHANET
umls:C1851718Emphysema, Hereditary Pulmonary0MGD
umls:C1869116ASTHMA, SUSCEPTIBILITY TO (finding)0MGD