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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 CYP4V2
check button Gene summary
Basic gene informationGene symbolCYP4V2
Gene namecytochrome P450, family 4, subfamily V, polypeptide 2
SynonymsBCD|CYP4AH1
CytomapUCSC genome browser: 4q35.2
Type of geneprotein-coding
RefGenesNM_207352.3,
Descriptioncytochrome P450 4V2docosahexaenoic acid omega-hydroxylase CYP4V2
Modification date20141219
dbXrefs MIM : 608614
HGNC : HGNC
HPRD : 16777
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CYP4V2
BioGPS: 285440
PathwayNCI Pathway Interaction Database: CYP4V2
KEGG: CYP4V2
REACTOME: CYP4V2
Pathway Commons: CYP4V2
ContextiHOP: CYP4V2
ligand binding site mutation search in PubMed: CYP4V2
UCL Cancer Institute: CYP4V2
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)KidneyLiver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)KIRC,KIRP,KICHLIHC
Reference showing the relevant tissue of CYP4V2
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
GO:0010430fatty acid omega-oxidation19661213
GO:0010430fatty acid omega-oxidation19661213


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TissGeneExp for CYP4V2

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
LUSC-2.328005161-0.506903201-1.8211019616.72E-207.80E-19
LIHC0.9216553482.359531348-1.4378764.16E-115.70E-10
KICH-0.5070626520.546501348-1.0535641.87E-055.61E-05
BLCA-2.107556967-1.043314862-1.0642421050.008340.038885031


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TissGene-miRNA for CYP4V2

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 CYP4V2
TissGeneSNV for CYP4V2

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.L22VCOAD2
p.R221HTHYM1
p.R221CSKCM1
p.E407KBLCA1
p.P459SSKCM1
p.E202_spliceLUSC1
p.A278TCOAD1
p.S347YBLCA1
p.S394FSKCM1
p.P393LSKCM1
p.R233IUCS1
p.M236ILUSC1
p.E310KUCEC1
p.G463VLUAD1
p.R368HLUSC1
p.L194RSTAD1
p.S482LLUAD1
p.E491*UCEC1
p.R443WBRCA1
p.R390HPRAD1
p.E160KSKCM1
p.M149ILGG1
p.D285NSKCM1
p.R232XREAD1
p.R508CSKCM1
p.T81RLUAD1
p.K471TUCEC1
p.E271DLUAD1
p.R221HREAD1
p.K249NSKCM1
p.R452HPAAD1
p.S145FDLBC1
p.G512DLGG1
p.R400CLUAD1
p.K125MSTAD1
p.G469CUCEC1
p.E373QLUAD1
p.R221LLUAD1
p.G95RSKCM1
p.P396SSKCM1
p.S482LREAD1
p.E228GSTAD1
p.R85HUCEC1
p.L22VREAD1
p.D360GLUAD1
p.F445ISKCM1
p.E442KLUAD1
p.P349SSKCM1
p.S482LBLCA1
p.M327ICOAD1
p.M149ILUAD1


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TissGeneCNV for CYP4V2

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 CYP4V2

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 CYP4V2

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)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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COAD (tumor)COAD (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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HNSC (tumor)HNSC (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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KICH (tumor)KICH (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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KIRC (tumor)KIRC (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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KIRP (tumor)KIRP (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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LIHC (tumor)LIHC (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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LUAD (tumor)LUAD (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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LUSC (tumor)LUSC (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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PRAD (tumor)PRAD (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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STAD (tumor)STAD (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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THCA (tumor)THCA (normal)
CYP4V2, SIN3A, ZNF420 (tumor)CYP4V2, SIN3A, ZNF420 (normal)
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TissGeneProg for CYP4V2

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 CYP4V2
TissGeneDrug for CYP4V2

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 CYP4V2

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C1859486BIETTI CRYSTALLINE CORNEORETINAL DYSTROPHY19BeFree,CLINVAR,CTD_human,ORPHANET,UNIPROT
umls:C0149871Deep Vein Thrombosis2BeFree
umls:C0014121Bacterial Endocarditis1BeFree
umls:C0019693HIV Infections1GAD
umls:C0023434Chronic Lymphocytic Leukemia1BeFree
umls:C0026847Spinal Muscular Atrophy1BeFree
umls:C0040336Tobacco Use Disorder1GAD
umls:C0042487Venous Thrombosis1GAD,LHGDN
umls:C0151950Deep thrombophlebitis1BeFree
umls:C0340708Deep vein thrombosis of lower limb1BeFree
umls:C0686619Secondary malignant neoplasm of lymph node1BeFree
umls:C1285498Vegetation1BeFree
umls:C1541923Infective endocarditis1BeFree
umls:C1861172Venous Thromboembolism1GAD