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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 ATP6V0A4
check button Gene summary
Basic gene informationGene symbolATP6V0A4
Gene nameATPase, H+ transporting, lysosomal V0 subunit a4
SynonymsA4|ATP6N1B|ATP6N2|RDRTA2|RTA1C|RTADR|STV1|VPH1|VPP2
CytomapUCSC genome browser: 7q34
Type of geneprotein-coding
RefGenesNM_020632.2,
NM_130840.2,NM_130841.2,
DescriptionATPase, H+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1BATPase, H+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kD)H(+)-transporting two-sector ATPase, noncatalytic accessory pro
Modification date20141207
dbXrefs MIM : 605239
HGNC : HGNC
Ensembl : ENSG00000105929
HPRD : 05576
Vega : OTTHUMG00000157122
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ATP6V0A4
BioGPS: 50617
PathwayNCI Pathway Interaction Database: ATP6V0A4
KEGG: ATP6V0A4
REACTOME: ATP6V0A4
Pathway Commons: ATP6V0A4
ContextiHOP: ATP6V0A4
ligand binding site mutation search in PubMed: ATP6V0A4
UCL Cancer Institute: ATP6V0A4
Assigned class in TissGDB*C
Included tissue-specific gene expression resources
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)Kidney
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)KIRC,KIRP,KICH
Reference showing the relevant tissue of ATP6V0A4
Description by TissGene annotationsCancer gene
* 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 ATP6V0A4

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
HNSC1.0071610635.902281993-4.895120934.35E-177.53E-15
PRAD-0.8686948851.609987807-2.4786826922.42E-093.41E-08
KIRP1.6546878079.171200307-7.51651251.54E-122.38E-11
KIRC-0.2603677488.987139196-9.2475069444.04E-421.93E-40
KICH11.042577819.0011698072.0414089.44E-050.000247688


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TissGene-miRNA for ATP6V0A4

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 ATP6V0A4
TissGeneSNV for ATP6V0A4

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.V605IUCEC2
p.G195ESKCM2
p.L65ILUAD1
p.G820RBLCA1
p.W526*SKCM1
p.V263IGBM1
p.P395LSKCM1
p.S669FSKCM1
p.L584MSTAD1
p.R191QUCEC1
p.N815SSKCM1
p.A289SHNSC1
p.G410VHNSC1
p.E278DKICH1
p.S348FBLCA1
p.A374VSKCM1
p.G168ESKCM1
p.T213_spliceUCEC1
p.L96MSTAD1
p.R6*SKCM1
p.R6QREAD1
p.L117FPAAD1
p.M302ISKCM1
p.K336NBLCA1
p.S84NSKCM1
p.R191QCOAD1
p.T140MBLCA1
p.V603ISTAD1
p.P248SSKCM1
p.A630TDLBC1
p.G771VLUAD1
p.L767VBRCA1
p.G555SSKCM1
p.Q672XCOAD1
p.D506YREAD1
p.T213MUCEC1
p.D269YUCEC1
p.A116TSTAD1
p.I460MHNSC1
p.G463SSKCM1
p.R667QSTAD1
p.E62DSTAD1
p.E8KSKCM1
p.S688ILUAD1
p.S829FSKCM1
p.P578TCOAD1
p.D210NSKCM1
p.A422TUCEC1
p.K219NUCEC1
p.G777RUCEC1
p.E141KREAD1
p.H722PSKCM1
p.L17IREAD1
p.A805TLUSC1
p.R743QUCEC1
p.Q670HACC1
p.W442*SKCM1
p.L117FLUSC1
p.G711EBLCA1
p.R663GCOAD1
p.D331NBLCA1
p.F582CCOAD1
p.A362SPAAD1
p.P652QESCA1
p.I235FOV1
p.N467SLUSC1
p.A791PUCS1
p.N493YSKCM1
p.A805VLGG1
p.Q282*STAD1
p.N629SKIRC1
p.R6*CESC1
p.G705ESKCM1
p.Q282XSTAD1
p.C249*LUAD1
p.L260SCOAD1
p.T213MSTAD1
p.M580ISKCM1
p.Y396HSTAD1
p.T738KLIHC1
p.Q233ESTAD1
p.G798DHNSC1
p.K824NUCEC1
p.W442XSKCM1
p.S184FSKCM1
p.I617MBLCA1
p.R57WLUAD1
p.R568GLUAD1
p.E390KSKCM1
p.D438EGBM1
p.E82KSKCM1
p.L794MKIRP1
p.R743WREAD1
p.Y461HREAD1
p.T397PSKCM1
p.R667WLUAD1
p.E31GSTAD1
p.H280DBRCA1
p.G515ESKCM1
p.E92KSKCM1
p.P631TCESC1
p.R667QSKCM1
p.R194QSKCM1
p.A609TESCA1
p.L793VLIHC1
p.H666YREAD1
p.E123KUCEC1
p.R694HSARC1
p.S544LSKCM1
p.R431HSARC1
p.H809DLIHC1
p.V719GCOAD1
p.E278VKICH1
p.T245NGBM1
p.E324KSKCM1
p.Y818CHNSC1
p.W424*LUAD1


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TissGeneCNV for ATP6V0A4

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 ATP6V0A4

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
Chimerdb3.0ChiTaRsNABF823719CTSA-ATP6V0A4chr20:44527103chr7:138406708


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TissGeneNet for ATP6V0A4

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)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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COAD (tumor)COAD (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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HNSC (tumor)HNSC (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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KICH (tumor)KICH (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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KIRC (tumor)KIRC (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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KIRP (tumor)KIRP (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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LIHC (tumor)LIHC (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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LUAD (tumor)LUAD (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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LUSC (tumor)LUSC (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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PRAD (tumor)PRAD (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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STAD (tumor)STAD (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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THCA (tumor)THCA (normal)
ATP6V0A4, PFKM, FOXI1 (tumor)ATP6V0A4, PFKM, FOXI1 (normal)
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TissGeneProg for ATP6V0A4

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 ATP6V0A4
TissGeneDrug for ATP6V0A4

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 ATP6V0A4

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C1704380Distal Renal Tubular Acidosis14BeFree
umls:C0018784Sensorineural Hearing Loss (disorder)9BeFree
umls:C1864498RENAL TUBULAR ACIDOSIS, DISTAL, AUTOSOMAL RECESSIVE7BeFree,CLINVAR,CTD_human,MGD,UNIPROT
umls:C0155552Hearing Loss, Mixed Conductive-Sensorineural2BeFree
umls:C0002895Anemia, Sickle Cell1GAD
umls:C0010414Infection by Cryptococcus neoformans1BeFree
umls:C0014038Encephalitis1BeFree
umls:C0022681Medullary sponge kidney1BeFree
umls:C0026946Mycoses1BeFree
umls:C0040336Tobacco Use Disorder1GAD
umls:C0243026Sepsis1BeFree
umls:C0279702Conventional (Clear Cell) Renal Cell Carcinoma1BeFree
umls:C0334583Pilocytic Astrocytoma1BeFree
umls:C1863752Enlarged Vestibular Aqueduct1BeFree
umls:C1864499Renal Tubular Acidosis, Distal, Autosomal Recessive, with Late-Onset Sensorineural Hearing Loss0CLINVAR